DDBJ Annotated/Assembled Sequences
配列データ記載例
典型的な配列データの記載例としてご参照ください。
A: Ribosomal RNA, ITS, IGS
A01) 16S rRNA gene
配列の方向を rRNA の転写方向に揃えてください。
DEFINITION Vibrio halioticoli IAM 14597 gene for 16S rRNA, partial sequence.
FEATURES Location/Qualifiers
source 1..1471
/collection_date="2007"
/geo_loc_name="Japan"
/mol_type="genomic DNA"
/organism="Vibrio halioticoli"
/strain="IAM 14597"
rRNA <1..>1471
/product="16S ribosomal RNA"
A02) 18S rRNA gene including intron
配列の方向を rRNA の転写方向に揃えてください。
DEFINITION Sporobolomyces ruber JCM 6884 gene for 18S rRNA, partial sequence.
FEATURES Location/Qualifiers
source 1..2072
/collection_date="2007"
/geo_loc_name="Japan"
/mol_type="genomic DNA"
/organism="Sporobolomyces ruber"
/strain="JCM 6884"
rRNA join(<1..1144,1469..>2072)
/product="18S ribosomal RNA"
intron 1145..1468
A03) ITS1, ITS2
配列の方向を rRNA の転写方向に揃えてください。
DEFINITION Microsphaera trifolii var. trifolii MUMH29s genes for 18S rRNA,
ITS1, 5.8S rRNA, ITS2, 28S rRNA, partial and complete sequence.
FEATURES Location/Qualifiers
source 1..597
/collection_date="2007"
/geo_loc_name="Japan"
/isolate="MUMH29s"
/mol_type="genomic DNA"
/organism="Microsphaera trifolii var. trifolii"
/host="Trifolium vulgaris"
/tissue_type="conidia"
/variety="trifolii"
rRNA <1..4
/product="18S ribosomal RNA"
misc_RNA 5..224
/note="internal transcribed spacer 1"
rRNA 225..378
/product="5.8S ribosomal RNA"
misc_RNA 379..562
/note="internal transcribed spacer 2"
rRNA 563..>597
/product="28S ribosomal RNA"
rRNA, ITS の境界は無理に推測する必要はありません。
各 rRNA、ITS の境界が不明な場合は、以下の annotation を記載します。
FEATURES Location/Qualifiers
source 1..597
/collection_date="2007"
/geo_loc_name="Japan"
/isolate="MUMH29s"
/mol_type="genomic DNA"
/organism="Microsphaera trifolii var. trifo lii"
/host="Trifolium vulgaris"
/tissue_type="conidia"
/variety="trifolii"
misc_RNA <1..>597
/note="contains 18S ribosomal RNA, internal transcribed
spacer 1, 5.8S ribosomal RNA, internal transcribed spacer
2, and 28S ribosomal RNA"
A04) intergenic spacer, IGS
IGS の場合、隣接する遺伝子名の記載順と配列中での出現順が同じくなるように配列の方向を揃えてください。
DEFINITION Setaria italica cv. Shimokatsugi genes for 25S rRNA, IGS, 17S rRNA,
partial and complete sequence.
FEATURES Location/Qualifiers
source 1..2646
/collection_date="2007"
/cultivar="Shimokatsugi"
/geo_loc_name="Japan"
/mol_type="genomic DNA"
/organism="Setaria italica"
rRNA <1..493
/product="25S ribosomal RNA"
misc_feature 494..2484
/note="intergenic spacer, IGS"
rRNA 2485..>2646
/product="17S ribosomal RNA"
DEFINITION Acer distylum AX-1 chloroplast DNA, psbA-trnH IGS.
FEATURES Location/Qualifiers
source 1..264
/collection_date="2007"
/geo_loc_name="Japan"
/isolate="AX-1"
/mol_type="genomic DNA"
/organelle="plastid:chloroplast"
/organism="Acer distylum"
misc_feature <1..>264
/note="psbA-trnH intergenic spacer"
DEFINITION Acer distylum AY-b chloroplast genes for photosystem II protein D1,
psbA-trnH IGS, tRNA-His.
FEATURES Location/Qualifiers
source 1..466
/collection_date="2007"
/geo_loc_name="Japan"
/isolate="AY-b"
/mol_type="genomic DNA"
/organelle="plastid:chloroplast"
/organism="Acer distylum"
CDS <1..40
/codon_start=1
/gene="psbA"
/product="photosystem II protein D1"
/translation="DLAAIEAPSTNG"
/transl_table=11
misc_feature 41..453
/note="psbA-trnH intergenic spacer"
tRNA 454..>466
/gene="trnH"
/product="tRNA-His"
B: Protein-coding genes
B01) CDS (mRNA)
DEFINITION Homo sapiens AQP9 mRNA for aquaporin 9, complete cds.
FEATURES Location/Qualifiers
source 1..2878
/collection_date="2007"
/geo_loc_name="Japan"
/mol_type="mRNA"
/organism="Homo sapiens"
/tissue_type="liver"
CDS 217..1104
/codon_start=1
/gene="AQP9"
/product="aquaporin 9"
/translation="--- omitted ---"
/transl_table=1
B02) CDS (DNA)
DEFINITION Aspergillus oryzae RIB128 tglA gene for triacylglycerol lipase,
complete cds.
FEATURES Location/Qualifiers
source 1..1025
/collection_date="2007"
/geo_loc_name="Japan"
/mol_type="genomic DNA"
/organism="Aspergillus oryzae"
/strain="RIB128"
CDS join(34..330,378..523,607..764,827..990)
/codon_start=1
/gene="tglA"
/product="triacylglycerol lipase"
/transl_table=1
/translation="--- omitted ---"
B03) premature mRNA
DEFINITION Cynops pyrrhogaster CpTbx3 premature mRNA, partial cds.
FEATURES Location/Qualifiers
source 1..5170
/collection_date="2007"
/dev_stage="gastrula"
/geo_loc_name="Japan"
/mol_type="transcribed RNA"
/organism="Cynops pyrrhogaster"
/tissue_type="embryo"
intron <1..359
CDS <360..2135
/codon_start=1
/gene="CpTbx3"
/note="T-box family member; T-box domain"
/transl_table=1
/translation="--- omitted ---"
B04) promoter region
DEFINITION Mus musculus 129SVJ mNB-3 gene for neural recognition molecule NB-3,
exon 1 and promoter region.
FEATURES Location/Qualifiers
source 1..1300
/collection_date="2007"
/dev_stage="4-8 weeks old"
/geo_loc_name="Japan"
/mol_type="genomic DNA"
/organism="Mus musculus"
/sex="female"
/strain="129SVJ"
regulatory <1..1197
/regulatory_class="promoter"
exon 1198..>1300
/gene="mNB-3"
/note="neural recognition molecule NB-3"
/number=1
B05) 5’ flanking region
DEFINITION Mus musculus 129SV gene for membrane cofactor protein CD46, 5'
flanking region.
FEATURES Location/Qualifiers
source 1..1614
/collection_date="2007"
/geo_loc_name="Japan"
/mol_type="genomic DNA"
/organism="Mus musculus"
/strain="129SV"
misc_feature 1..1614
/note="5' flanking region"
/product="membrane cofactor protein CD46"
B06) pseudogene
DEFINITION Homo sapiens pseudogene, necdin.
FEATURES Location/Qualifiers
source 1..2285
/collection_date="2007"
/geo_loc_name="Japan"
/mol_type="genomic DNA"
/organism="Homo sapiens"
CDS <1..1319
/note="pseudogene of necdin"
/pseudogene="processed"
B07) alternative splicing (mRNA)
[isoform 1]
DEFINITION Homo sapiens BAP2 mRNA for BAI-associated protein 2 alpha,
complete cds.
ACCESSION XA000001
FEATURES Location/Qualifiers
source 1..3168
/collection_date="2007"
/geo_loc_name="Japan"
/mol_type="mRNA"
/organism="Homo sapiens"
CDS 94..1659
/codon_start=1
/gene="BAP2"
/note="alternative splicing: see also Acc# XA000002.1"
/product="BAI-associated protein 2 alpha"
/transl_table=1
/translation="--- omitted ---"
[isoform 2]
DEFINITION Homo sapiens BAP2 mRNA for BAI-associated protein 2 beta,
complete cds.
ACCESSION XA000002
FEATURES Location/Qualifiers
source 1..2129
/collection_date="2007"
/geo_loc_name="Japan"
/mol_type="mRNA"
/organism="Homo sapiens"
CDS 94..1659
/codon_start=1
/gene="BAP2"
/note="alternative splicing: see also Acc# XA000001.1"
/product="BAI-associated protein 2 beta"
/transl_table=1
/translation="--- omitted ---"
B08) alternative splicing (DNA)
DEFINITION Homo sapiens KNP-I gene for KNP-I alpha protein, KNP-I beta
protein, partial cds, alternative splicing.
FEATURES Location/Qualifiers
source 1..13051
/cell_line="GM130B"
/cell_type="B-lymphoblastoid"
/chromosome="21"
/clone="D6B5"
/collection_date="2007"
/geo_loc_name="Japan"
/map="21q22.3"
/mol_type="genomic DNA"
/organism="Homo sapiens"
exon 2676..2884
/gene="KNP-I"
/number=1
CDS join(2744..2884,3148..3200,5106..5219,6223..6342,9296..
9388,12251..>12407)
/codon_start=1
/gene="KNP-I"
/product="KNP-I alpha protein"
/translation="--- omitted ---"
CDS join(2744..2884,3148..3200,5106..5219,6223..6342,12251..
>12407)
/codon_start=1
/gene="KNP-I"
/note="alternative splicing"
/product="KNP-I beta protein"
/translation="--- omitted ---"
exon 3148..3200
/gene="KNP-I"
/number=2
exon 5106..5219
/gene="KNP-I"
/number=3
exon 6223..6342
/gene="KNP-I"
/number=4
exon 9296..9388
/gene="KNP-I"
/number=5
exon 12251..12407
/gene="KNP-I"
/number=6
B09) RNA editing
DEFINITION Beta vulgaris TK81-O mitochondrial nad4L gene for NADH
dehydrogenase subunit 4L, complete cds.
FEATURES Location/Qualifiers
source 1..400
/collection_date="2007"
/geo_loc_name="Japan"
/mol_type="genomic DNA"
/organelle="mitochondrion"
/organism="Beta vulgaris"
/strain="TK81-O"
CDS 71..373
/codon_start=1
/exception="RNA editing"
/gene="nad4L"
/note="initiation codon is created by RNA editing"
/product="NADH dehydrogenase subunit 4L"
/transl_table=1
/translation="--- omitted ---"
misc_feature 72
/note="C to U RNA editing"
misc_feature 117
/note="C to U RNA editing"
misc_feature 125
/note="C to U RNA editing"
misc_feature 180
/note="C to U RNA editing"
misc_feature 201
/note="C to U RNA editing"
B10) ribosomal frameshift in HIV1 complete genome
DEFINITION Human immunodeficiency virus 1 95TNIH047 proviral DNA, complete
genome.
FEATURES Location/Qualifiers
source 1..9430
/collection_date="2007"
/geo_loc_name="Japan"
/isolate="95TNIH047"
/isolation_source="peripheral blood mononuclear
cell of male patient"
/mol_type="genomic DNA"
/organism="Human immunodeficiency virus 1"
/proviral
CDS join(759..2049,2049..5059)
/codon_start=1
/gene="gag-pol"
/note="produced by ribosomal frameshift slip on tttttt
slippery site"
/product="gag-pol fusion polyprotein"
/ribosomal_slippage
/translation="--- omitted ---"
CDS 759..2255
/codon_start=1
/gene="gag"
/product="Gag polyprotein precursor"
/transl_table=1
/translation="--- omitted ---"
--- The rest is omitted ---
B11) partial TAA stop codon in mitochondrial genome
DEFINITION Mus musculus SAMP8 mitochondrial DNA, complete genome.
FEATURES Location/Qualifiers
source 1..16299
/collection_date="2007"
/geo_loc_name="Japan"
/mol_type="genomic DNA"
/organelle="mitochondrion"
/organism="Mus musculus"
/strain="SAMP8"
/tissue_type="liver"
--- omitted ---
CDS 8607..9390
/codon_start=1
/gene="COX3"
/note="TAA stop codon is completed by the addition of 3'
A residues to the mRNA"
/product="cytochrome oxidase subunit 3"
/transl_except=(pos:9390,aa:TERM)
/transl_table=2
/translation="--- omitted ---"
tRNA 9391..9458
/anticodon=(pos:9421..9423,aa:Gly,seq:tcc)
/note="codon recognized: GGA"
/product="tRNA-Gly"
CDS 9459..9806
/codon_start=1
/gene="ND3"
/product="NADH dehydrogenase subunit 3"
/transl_table=2
/translation="--- omitted ---"
tRNA 9808..9875
/anticodon=(pos:9838..9840,aa:Arg,seq:tcg)
/note="codon recognized: CGA"
/product="tRNA-Arg"
--- The rest is omitted ---
B12) Major Histocompatibility Complex (MHC)
DEFINITION Homo sapiens HLA-A gene for MHC class I antigen, partial cds,
allele: HLA-A2(A*0201V3).
FEATURES Location/Qualifiers
source 1..546
/collection_date="2007"
/geo_loc_name="Japan"
/mol_type="genomic DNA"
/note="HLA-A2(A*0201V3)/24,B35/60,DRB1*1501/1202"
/organism="Homo sapiens"
CDS <1..>546
/allele="HLA-A2(A*0201V3)"
/codon_start=3
/gene="HLA-A"
/product="MHC class I antigen"
/transl_table=1
/translation="--- omitted ---"
B13) trans_splicing
DEFINITION Psilotum nudum cv. Kingyoku chloroplast DNA, complete genome.
FEATURES Location/Qualifiers
source 1..138829
/collection_date="2007"
/cultivar="Kingyoku"
/geo_loc_name="Japan"
/mol_type="genomic DNA"
/organelle="plastid:chloroplast"
/organism="Psilotum nudum"
---- omitted ----
CDS join(complement(68922..69035),133880..134137)
/codon_start=1
/note="trans splicing of 5'rps12 exon and 3'rps12 exon"
/product="ribosomal protein S12"
/protein_id="BAB84240.1"
/trans_splicing
/transl_table=11
/translation="MPTIQQLIRNARQPIRSRTKSPALRG CPQRRGVCIRVYTTTPK
KPNSALRKVARVRLTSGFEITAYIPGIGHNLQEHSVVSVRGGRVKDLPGVRYHIVRGT
LDAVGVKDRKQGRSRYGVKKPK"
exon complement(68922..69035)
/gene="rps12"
/note="5'rps12 exon, trans splicing"
/number=1
/product="ribosomal protein S12"
---- omitted ----
exon 133880..134137
/gene="rps12"
/note="3'rps12 exon, trans splicing"
/number=2
/product="ribosomal protein S12"
---- omitted ----
B14) preproprotein
DEFINITION Homo sapiens NMS mRNA for prepro-neuromedin S, complete cds.
FEATURES Location/Qualifiers
source 1..485
/collection_date="2007"
/geo_loc_name="Japan"
/mol_type="mRNA"
/organism="Homo sapiens"
CDS 8..469
/codon_start=1
/gene="NMS"
/product="prepro-neuromedin S"
/transl_table=1
/translation="--- omitted ---"
sig_peptide 8..88
/gene="NMS"
propeptide 89..466
/gene="NMS"
/product="pro-neuromedin S"
mat_peptide 332..430
/gene="NMS"
/product="neuromedin S"
B15) polyprotein
DEFINITION Dengue virus 2 DR123 genomic RNA, complete genome.
FEATURES Location/Qualifiers
source 1..10723
/collection_date="2001"
/geo_loc_name="Dominican Republic"
/host="Homo sapiens"
/mol_type="genomic RNA"
/organism="Dengue virus 2"
/strain="DR123"
CDS 97..10272
/codon_start=1
/product="polyprotein"
/transl_table=1
/translation="--- omitted ---"
mat_peptide 97..438
/product="anchored capsid protein C"
mat_peptide 439..936
/product="membrane glycoprotein precursor M"
mat_peptide 937..2421
/product="envelope protein E"
mat_peptide 2422..3477
/product="nonstructural protein NS1"
mat_peptide 3478..4131
/product="nonstructural protein NS2A"
mat_peptide 4132..4518
/product="nonstructural protein NS2B"
mat_peptide 4519..6375
/product="nonstructural protein NS3"
mat_peptide 6376..6825
/product="nonstructural protein NS4A"
mat_peptide 6826..7569
/product="nonstructural protein NS4B"
mat_peptide 7570..10269
/product="RNA-dependent RNA polymerase"
B16) misc_feature instead of CDS (DNA)
以下のような場合、CDS feature に代えて misc_feature で記載します。
- exon, intron の位置を指定できない。
- 配列決定の精度が低い。
- 原因不明でフレームが合わないなど、想定されるアミノ酸配列に翻訳されない。
- 原因不明で途中で終止コドンが出現して conceptual translation が成立しない。
DEFINITION Aspergillus oryzae RIB256 DNA, similar to triacylglycerol lipase,
partial sequence.
FEATURES Location/Qualifiers
source 1..555
/collection_date="2007"
/geo_loc_name="Japan"
/mol_type="genomic DNA"
/organism="Aspergillus oryzae"
/strain="RIB256"
misc_feature <1..>555
/gene="tglA"
/note="similar to triacylglycerol lipase; coding region
not specified"
C: EST, GSS, marker
C01) EST (Expressed Sequence Tag)
EST の説明もご参照ください。
DEFINITION Mus musculus cDNA, clone: 2310009B01, 3' end sequence, expressed
in tongue.
KEYWORDS EST; 3'-end sequence (3'-EST).
FEATURES Location/Qualifiers
source 1..267
/clone="2310009B01"
/collection_date="2007"
/dev_stage="adult"
/geo_loc_name="Japan"
/mol_type="mRNA"
/organism="Mus musculus"
/sex="male"
/tissue_type="tongue"
C02) GSS (Genome Survey Sequence)
GSS の説明もご参照ください。
DEFINITION Arabidopsis thaliana Columbia DNA, YAC clone: CIC5D1, left end,
chromosome 1 between mi303 and mi259.
KEYWORDS GSS.
FEATURES Location/Qualifiers
source 1..532
/chromosome="1"
/clone="YAC clone CIC5D1"
/collection_date="2007"
/ecotype="Columbia"
/geo_loc_name="Japan"
/map="between mi303 and mi259"
/mol_type="genomic DNA"
/organism="Arabidopsis thaliana"
C03) marker (unknown function)
機能面の性質が不明な配列領域の記載例。
DEFINITION Sus scrofa DNA, marker region of XXX disease, clone:AA12345.
FEATURES Location/Qualifiers
source 1..200
/chromosome="1"
/clone="AA12345"
/collection_date="2007"
/geo_loc_name="Japan"
/mol_type="genomic DNA"
/organism="Sus scrofa"
primer_bind 1..20
/PCR_conditions="30 cycles 94degC 30 sec,
56degC 30 sec and 72degC 30 sec"
misc_feature 21..179
/note="marker region of XXX disease"
primer_bind complement(180..200)
D: Repeat
D01.1) microsatellite, recommended annotation
DEFINITION Bos taurus DNA, microsatellite: 3456P.
FEATURES Location/Qualifiers
source 1..300
/chromosome="11"
/collection_date="2007"
/geo_loc_name="Japan"
/map="11p"
/mol_type="genomic DNA"
/organism="Bos taurus"
primer_bind 20..40
/PCR_conditions="denaturation 94degC 2 min; 30 cycles
94degC 30 sec, 56degC 1 min, 72degC 1 min; final
extention 72degC 1 min"
repeat_region 60..200
/rpt_type=tandem
/rpt_unit_seq="ta"
/satellite="microsatellite: 3456P"
primer_bind complement(210..230)
D01.2) microsatellite, minimal annotation
DEFINITION Paralichthys olivaceus DNA, microsatellite: Poli1TUF.
FEATURES Location/Qualifiers
source 1..222
/collection_date="2007"
/geo_loc_name="Japan"
/mol_type="genomic DNA"
/organism="Paralichthys olivaceus"
repeat_region 25..94
/rpt_type=tandem
/rpt_unit_seq="ca"
/satellite="microsatellite: Poli1TUF"
D02) transposon
DEFINITION Escherichia coli transposon Tn2000 DNA, complete sequence.
FEATURES Location/Qualifiers
source 1..5000
/collection_date="2007"
/geo_loc_name="Japan"
/mol_type="genomic DNA"
/organism="Escherichia coli"
mobile_element 1..5000
/mobile_element_type="transposon:Tn2000"
repeat_region 1..100
/rpt_type=inverted
CDS 146..1576
/codon_start=1
/product="transposase"
/transl_table=11
/translation="--- omitted ---"
CDS 2785..3585
/codon_start=1
/product="streptomycin phosphotransferase"
/transl_table=11
/translation="--- omitted ---"
repeat_region 4900..5000
/rpt_type=inverted
D03) insertion sequence
DEFINITION Streptomyces coelicolor A456 insertion sequence IS123 DNA, complete
sequence.
FEATURES Location/Qualifiers
source 1..2000
/collection_date="2007"
/geo_loc_name="Japan"
/mol_type="genomic DNA"
/organism="Streptomyces coelicolor"
/strain="A456"
repeat_region 44..48
/note=target sequence
/rpt_type=flanking
mobile_element 49..1166
/mobile_element_type="insertion sequence:IS123"
repeat_region 49..78
/note="30nt perfect inverted repeat"
/rpt_type=inverted
CDS 271..1110
/codon_start=1
/gene="tnpA"
/product="transposase"
/transl_table=11
/translation="--- omitted ---"
repeat_region 1137..1166
/note="30nt perfect inverted repeat"
/rpt_type=inverted
repeat_region 1167..1171
/note="target sequence"
/rpt_type=flanking
E: Particular resources
E01) environmental sample sequence
環境サンプルの説明もご参照ください。
DEFINITION Uncultured bacterium 4-11 gene for 16S rRNA, partial sequence.
FEATURES Location/Qualifiers
source 1..1475
/clone="4-11"
/collection_date="2007"
/environmental_sample
/geo_loc_name="Japan"
/isolation_source="solid waste compost"
/mol_type="genomic DNA"
/organism="uncultured bacterium"
rRNA <1..>1475
/product="16S rRNA"
E02) organism name with sp. (unidentified species)
DEFINITION Eirene sp. EML1 GAPDH mRNA for glyceraldehyde-3-phosphate
dehydrogenase, partial cds.
FEATURES Location/Qualifiers
source 1..245
/collection_date="2007"
/geo_loc_name="Japan"
/mol_type="mRNA"
/organism="Eirene sp. EML1"
/strain="EML1"
CDS <1..>245
/codon_start=3
/gene="GAPDH"
/product="glyceraldehyde-3-phosphate dehydrogenase"
/translation="--- omitted ---"
E03) natural plasmid
DEFINITION Rhodococcus rhodochrous IFO 3338 plasmid pRC4 repA, repB genes for
replication protein, DNA-binding replication protein, complete
cds.
FEATURES Location/Qualifiers
source 1..2582
/collection_date="2007"
/geo_loc_name="Japan"
/mol_type="genomic DNA"
/organism="Rhodococcus rhodochrous"
/plasmid="pRC4"
/strain="IFO 3338"
CDS 1142..2062
/codon_start=1
/gene="repA"
/product="replication protein"
/transl_table=11
/translation="--- omitted ---"
CDS 2052..2333
/codon_start=1
/gene="repB"
/product="DNA-binding replication protein"
/transl_table=11
/translation="--- omitted ---"
E04) cloning vector
DEFINITION Cloning vector pAP3neo DNA, complete sequence.
FEATURES Location/Qualifiers
source 1..5350
/collection_date="missing:synthetic construct"
/geo_loc_name="missing:synthetic construct"
/mol_type="other DNA"
/organism="Cloning vector pAP3neo"
rep_origin 572..1452
/note="ColE1-derived plasmid replication origin"
CDS complement(1513..2373)
/codon_start=1
/gene="Amp"
/product="beta-lactamase"
/transl_table=11
/translation="--- omitted ---"
rep_origin 2504..2959
/note="phage f1 region"
regulatory 3290..3485
/note="SV40 early promoter"
/regulatory_class="promoter"
CDS 3596..4390
/codon_start=1
/gene="neo"
/product="neomycin phosphotransferase"
/transl_table=11
/translation="--- omitted ---"
regulatory 4788..4983
/note="SV40 early promoter"
/regulatory_class="promoter"
regulatory 5188..5207
/note="T7 promoter"
/regulatory_class="promoter"
regulatory 5302..5321
/note="T3 promoter"
/regulatory_class="promoter"
E05) synthetic construct
DEFINITION Synthetic construct gene for Rai-chu 101, complete cds.
FEATURES Location/Qualifiers
source 1..2223
/collection_date="missing:synthetic construct"
/focus
/geo_loc_name="missing:synthetic construct"
/mol_type="other DNA"
/organism="synthetic construct"
CDS 1..2223
/codon_start=1
/gene="Rai-chu 101"
/note="fusion protein, Ras and interacting protein
chimeric unit 101"
/product="Rai-chu 101"
/transl_table=11
/translation="--- omitted ---"
source 724..1239
/collection_date="missing:synthetic construct"
/geo_loc_name="missing:synthetic construct"
/mol_type=other DNA""
/note="derived from human H-Ras cDNA"
/organism="Homo sapiens"
source 1258..1500
/collection_date="missing:synthetic construct"
/geo_loc_name="missing:synthetic construct"
/mol_type=other DNA""
/note="derived from human Raf cDNA"
/organism="Homo sapiens"
E06.1) miRNA mature transcript
DEFINITION Arabidopsis thaliana miR840 miRNA.
FEATURES Location/Qualifiers
source 1..21
/collection_date="2007"
/geo_loc_name="Japan"
/mol_type="transcribed RNA"
/organism="Arabidopsis thaliana"
ncRNA 1..21
/ncRNA_class="miRNA"
/product="miR840"
E06.2) miRNA precursor transcript
DEFINITION Arabidopsis thaliana miR840-843 polycistronic noncoding RNA.
FEATURES Location/Qualifiers
source 1..2223
/collection_date="2007"
/geo_loc_name="Japan"
/mol_type="transcribed RNA"
/organism="Arabidopsis thaliana"
precursor_RNA 1..1342
/product="miR840-843 polycistronic noncoding RNA"
ncRNA 98..119
/ncRNA_class="miRNA"
/product="miR840"
ncRNA 1177..1197
/ncRNA_class="miRNA"
/product="miR843"
F: Variation
F01) polymorphism and variation
多型関連研究における同一配列の代表データ登録もご参照ください。
DEFINITION Homo sapiens IGF1R mRNA for insulin-like growth factor I receptor,
partial cds.
FEATURES Location/Qualifiers
source 1..1000
/collection_date="2007"
/geo_loc_name="Japan"
/mol_type="mRNA"
/organism="Homo sapiens"
CDS <1..>1000
/codon_start=2
/gene="IGF1R"
/product="insulin-like growth factor I recep tor"
/translation="--- omitted ---"
variation 100
/inference="similar to DNA sequence (same
species):INSD:AB000000.1"
/note="polymorphism"
/note="This substitution causes an amino acid
substitution from Ala to Thr."
/replace="a"
F02) candidates of polymorphism found by direct sequencing of diploid genome
FEATURES Location/Qualifiers
source 1..426
/collection_date="2007"
/geo_loc_name="Japan"
/mol_type="mRNA"
/organism="Homo sapiens"
variation 260
/experiment="heterozygous SNP detection from direct
sequencing"
/note="putative SNP, T/C"
variation 342
/experiment="heterozygous SNP detection from direct
sequencing"
/note="putative SNP, T/C"
BASE COUNT 164 a 55 c 55 g 150 t
ORIGIN
1 gagccacatc aagatcacca tatttcagcg gatcatcagc tttctcccct actatagtat
61 cctcagataa agagaccatt gagattatag acctagctaa gaaagattta gagaagctga
121 aaagaaaaga aaagaagaag aaaaaaaggt agtgttataa aatcactttt atatgaatct
181 ctattcttct cacttttaag gatattttaa tttgcagttg caatgagtat atataacctc
241 atttttaaaa atgaaatgty atttaacata gattataatt atatattttt aaagatttat
301 ctcttcctta tatgtaaaaa attaaattaa ttacaataat ayggtagtga attttattta
361 gactatgata aggtaaaatt actattagaa attattttat tatttcttca actagctgcc
421 tttgca
//
G: Sequencing gap
G01) entry with unknown gaps
DEFINITION Homo sapiens HLA-A gene for MHC class I antigen, partial cds,
allele: HLA-A*2601V1.
FEATURES Location/Qualifiers
source 1..1022
/collection_date="2007"
/geo_loc_name="Japan"
/mol_type="genomic DNA"
/note="HLA-A*2601V1/2402,B*4001/4002,DRB1*0901/1401,
TBC191371"
/organism="Homo sapiens"
CDS join(<1..270,371..646,747..>1022)
/allele="HLA-A*2601V1"
/codon_start=3
/gene="HLA-A"
/product="MHC class I antigen"
/translation="--- omitted ---"
exon 1..270
/allele="HLA-A*2601V1"
/gene="HLA-A"
/number=2
gap 271..370
/estimated_length=unknown
exon 371..646
/allele="HLA-A*2601V1"
/gene="HLA-A"
/number=3
gap 647..746
/estimated_length=unknown
exon 747..1022
/allele="HLA-A*2601V1"
/gene="HLA-A"
/number=4
BASE COUNT 166 a 249 c 288 g 119 t
ORIGIN
1 gctcccactc catgaggtat ttctacacct ccgtgtcccg gcccggccgc ggggagcccc
61 gcttcatcgc cgtgggctac gtggacgaca cgcagttcgt gcggttcgac agcgacgccg
121 cgagccagag gatggagccg cgggcgccgt ggatagagca ggaggggccg gagtattggg
181 accggaacac acggaatgtg aaggcccact cacagactga ccgagcgaac ctggggaccc
241 tgcgcggcta ctacaaccag agcgaggacg nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn
301 nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn
361 nnnnnnnnnn gttctcacac cgtccagagg atgtatggct gcgacgtggg gccggacggg
421 cgcttcctcc gcgggtacca gcaggacgct tacgacggca aggattacat cgccctgaac
481 gaggacctgc gctcttggac cgcggcggac atggcggctc agatcaccca gcgcaagtgg
541 gagacggccc atgaggcgga gcagtggaga gcctacctgg agggccggtg cgtggagtgg
601 ctccgcagat acctggagaa cgggaaggag acgctgcagc gcacggnnnn nnnnnnnnnn
661 nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn
721 nnnnnnnnnn nnnnnnnnnn nnnnnnacgc ccccaagacg catatgactc accacgctgt
781 ctctgaccat gaggccaccc tgaggtgctg ggccctgagc ttctaccctg cggagatcac
841 actgacctgg cagcgggatg gggaggacca gacccaggac acggagctcg tggagaccag
901 gcctgcaggg gatgggacct tccagaagtg ggcgtctgtg gtggtgcctt ctggacagga
961 gcagagatac acctgccatg tgcagcatga gggtctgccc aagcccctca ccctgagatg
1021 gg
//