TPA (Third Party Annotation) is a nucleotide sequence data collection in which each entry is obtained by assembling primary entries publicized from DDBJ/EMBL-Bank/GenBank, International Nucleotide Sequence Database Collaboration (INSDC) and/or Trace Archive with additional feature annotation(s) determined by experimental or inferential methods by TPA submitter.Those assemblies include two cases; one or more primary entries are used and newly determined sequence is contained.TPA sequence data should be submitted to DDBJ/EMBL-Bank/GenBank as a part of the process to publish biological research for primary nucleotide sequences.
Reference Literature Cochrane,G. et al. (2006) OMICS,10(2): 105-113
Primary entries used to build a TPA sequence are those that have been experimentally determined and are publicly available in the DDBJ/EMBL-Bank/GenBank databases.Each primary entry must be identified in the TPA entry.
Primary entries are sometimes not yet publicized at the submission of TPA sequence.However, the primary entries must be publicized when TPA sequence is opened to the public.
In order to draw a distinction between annotation supported by wet-lab. experimental evidence and inferred annotation, the TPA dataset is divided into TPA:experimental and TPA:inferential.
Please refer to the detailed list of TPA rule.
Contains only entries where the annotations presented are supported by peer-reviewed wet-lab. experimental evidence.
Sequences annotated by inference (where the source molecule or its product(s) have not been the subject of direct experimentation).
Until 2005, the only entries which were supported by biological (wet-lab.) experiment were accepted in TPA. Since 2006, entries which are not supported by wet-lab. experiment have been included into TPA when the entry meets the requirements of TPA guidelines in INSDC site.
LOCUS BR000000 2000 bp mRNA linear HUM 17-SEP-2006 DEFINITION TPA_exp: Homo sapiens GAPD gene for glyceraldehyde-3-phosphate dehydrogenase, complete cds. ACCESSION BR000000 VERSION BR000000.1 KEYWORDS Third Party Annotation; TPA; TPA:experimental. SOURCE Homo sapiens (human) ORGANISM Homo sapiens Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo. REFERENCE 1 (bases 1 to 2000) AUTHORS Mishima,H. and Shizuoka,T. TITLE Direct Submission JOURNAL Submitted (30-NOV-2005) to the DDBJ/EMBL/GenBank databases. Contact:Hanako Mishima National Institute of Genetics, DNA Data Bank of Japan; Yata 1111, Mishima, Shizuoka 411-8540, Japan REFERENCE 2 AUTHORS Mishima,H., Shizuoka,T. and Fuji,I. TITLE Glyceraldehyde-3-phosphate dehydrogenase of human JOURNAL TPA Biol Chem 10, 50-59 (2006) COMMENT PRIMARY TPA_SPAN PRIMARY_IDENTIFIER PRIMARY_SPAN COMP 1-1000 ZZ000001.1 50001-51000 101-200 ZZ000003.1 1-100 501-600 ZZ000003.1 101-200 901-2000 ZZ000002.1 25001-26100 c 1451-1550 ZZ000003.1 201-300 FEATURES Location/Qualifiers source 1..2000 /db_xref="taxon:9606" /mol_type="genomic DNA" /organism="Homo sapiens" CDS join(153..200,501..600,1451..1500) /codon_start=1 /gene="GAPD" /product="glyceraldehyde-3-phosphate dehydrogenase" /protein_id="FAA00000.1" /transl_table=1 /translation="MWYQSLVIIEKLNLEANIGKLINTKDNINIRCRLSHTEEHSWHS NNSQLNLIVDLIYNFYINWSK" BASE COUNT 522 a 493 c 524 g 461 t ORIGIN 1 attaatataa gctaaatatg tttttcaata tatattgata atagaatatc aacaatttgg : -- The rest of sequence is omitted -- : //