GGRNA ver.2 Home | Help | Advanced search    Previous release (v1)

2024-03-29 06:26:52, GGRNA.v2 : RefSeq release 222 (Jan, 2024)

LOCUS       XM_026835747            1953 bp    mRNA    linear   INV 22-OCT-2018
DEFINITION  PREDICTED: Ciona intestinalis homeobox transcription factor Pax6
            (pax6), transcript variant X1, mRNA.
ACCESSION   XM_026835747
VERSION     XM_026835747.1
DBLINK      BioProject: PRJNA187185
KEYWORDS    RefSeq.
SOURCE      Ciona intestinalis (vase tunicate)
  ORGANISM  Ciona intestinalis
            Eukaryota; Metazoa; Chordata; Tunicata; Ascidiacea; Phlebobranchia;
            Cionidae; Ciona.
COMMENT     MODEL REFSEQ:  This record is predicted by automated computational
            analysis. This record is derived from a genomic sequence
            (NC_020174.2) annotated using gene prediction method: Gnomon,
            supported by mRNA and EST evidence.
            Also see:
                Documentation of NCBI's Annotation Process
            
            ##Genome-Annotation-Data-START##
            Annotation Provider         :: NCBI
            Annotation Status           :: Full annotation
            Annotation Name             :: Ciona intestinalis Annotation
                                           Release 104
            Annotation Version          :: 104
            Annotation Pipeline         :: NCBI eukaryotic genome annotation
                                           pipeline
            Annotation Software Version :: 8.1
            Annotation Method           :: Best-placed RefSeq; Gnomon
            Features Annotated          :: Gene; mRNA; CDS; ncRNA
            ##Genome-Annotation-Data-END##
FEATURES             Location/Qualifiers
     source          1..1953
                     /organism="Ciona intestinalis"
                     /mol_type="mRNA"
                     /db_xref="taxon:7719"
                     /chromosome="9"
     gene            1..1953
                     /gene="pax6"
                     /gene_synonym="Ci-Pax6"
                     /note="homeobox transcription factor Pax6; Derived by
                     automated computational analysis using gene prediction
                     method: Gnomon. Supporting evidence includes similarity
                     to: 1 mRNA, 3 ESTs, 8 Proteins, and 100% coverage of the
                     annotated genomic feature by RNAseq alignments, including
                     44 samples with support for all annotated introns"
                     /db_xref="GeneID:445643"
     CDS             117..1607
                     /gene="pax6"
                     /gene_synonym="Ci-Pax6"
                     /codon_start=1
                     /product="homeobox transcription factor Pax6 isoform X1"
                     /protein_id="XP_026691548.1"
                     /db_xref="GeneID:445643"
                     /translation="
MATYDSCRQASSMALCFNRESLPHKGHSGMNQLGGMFVNGRPLPDSIRQKIVEFAHNGARPCDISRILQVSNGCVSKILARYYETGTIRPRAIGGSKPRVATPEVVNKIASYKRECPSIFAWEIRDRLLNEGICNNDNIPSVSSINRVLRNLNGDHQTGGFIETTGRDPKSGSQLGLEWSLTCNGWLPQQTMCQEQIAAEGLMGLKGKESVVESEAKDGSSEARLQLKRKLQRNRTSFTQIQVEALEKEFERTHYPDVFARERLATKIDLPEARIQVWFSNRRAKWRREEKIRSQRSSAASDGSDVMRRTNDQQSIGQCGVYSSVTQQHAQANHQLPAYHMPPEPYTGMNGYQMTSLPQTMIEHFPPMHRMHEAPYLYGLSSGGPSNLTPPPHYTSYDHDRRVEEPSHNTIPTPPSSANQPSPDHDHHGSHMQPLDGGIYQASLSGMHVGHQHHALVGAQATDQSASSMIVPPMTALQNPANFHTAEGYWQSGVQG"
     misc_feature    192..566
                     /gene="pax6"
                     /gene_synonym="Ci-Pax6"
                     /note="Paired Box domain; Region: PAX; smart00351"
                     /db_xref="CDD:128645"
     misc_feature    order(207..212,225..227,231..239,243..245,258..260,
                     294..296,300..302,327..329,336..338,342..347,357..359,
                     384..404,408..419,474..482,537..539,543..548,555..557,
                     564..566)
                     /gene="pax6"
                     /gene_synonym="Ci-Pax6"
                     /note="DNA binding site [nucleotide binding]"
                     /db_xref="CDD:238076"
     misc_feature    <708..1073
                     /gene="pax6"
                     /gene_synonym="Ci-Pax6"
                     /note="Homeodomain-containing transcription factor
                     [Transcription]; Region: COG5576"
                     /db_xref="CDD:227863"
     misc_feature    order(813..824,828..830,879..881,897..899,936..938,
                     942..947,954..959,963..971,975..980)
                     /gene="pax6"
                     /gene_synonym="Ci-Pax6"
                     /note="DNA binding site [nucleotide binding]"
                     /db_xref="CDD:238039"
     misc_feature    order(816..818,825..827,945..947,954..959,966..968)
                     /gene="pax6"
                     /gene_synonym="Ci-Pax6"
                     /note="specific DNA base contacts [nucleotide binding];
                     other site"
                     /db_xref="CDD:238039"
     misc_feature    819..977
                     /gene="pax6"
                     /gene_synonym="Ci-Pax6"
                     /note="Homeobox domain; Region: Homeobox; pfam00046"
                     /db_xref="CDD:425441"
ORIGIN      
taaaccttactgacattattttaatgacagacatatactgttatatataaaggacttttctgatttaggaaaatttacattttctgtctctggacattttcggcgaaatattttaaatggcgacgtacgattcttgtaggcaagccagcagcatggcgttgtgttttaatagggaaagtcttccacataaaggtcatagcggaatgaatcaattaggcggaatgttcgtcaacggccgaccccttcctgacagtattcgtcaaaaaatcgtcgaatttgcacataacggtgcgcgcccttgcgacatctcgcggatcctgcaagtatcgaacggatgtgtcagtaaaattttagcaagatattacgaaactgggacaatccgtccacgggcaatcggggggagcaagcctcgagtcgcaaccccggaagtcgtcaacaaaatcgcttcctacaagcgggagtgtcccagtatatttgcatgggagatcagggatcgtttgttaaacgaaggaatttgcaacaacgataatatcccgagtgtgtcttccataaaccgcgttcttcgaaacttaaacggtgaccaccaaaccggaggtttcattgagacgactggtcgagatccaaaatcgggttcgcagttggggttagagtggtcattaacttgtaacggttggttgccccagcaaactatgtgccaggaacaaattgcggccgaaggtcttatgggactgaaaggcaaggaatcggttgtggaatcagaagccaaagacggtagtagtgaagcccgccttcaattgaaacgtaaactccaacgaaaccgaacctctttcacacaaattcaagtcgaagctcttgaaaaagaatttgaaaggactcactacccggatgttttcgcacgggaaaggctggcaacaaaaattgatttacccgaagctcgaatacaggtttggttttcgaaccgtcgcgcaaaatggcgacgtgaagagaaaatacgtagccagcgcagcagcgccgctagtgacggctctgacgtaatgcgtagaacgaacgatcaacaaagtatcggccaatgtggtgtctactccagcgttacacaacagcatgcacaagccaaccaccagctcccagcttaccacatgccacccgaaccttacacgggaatgaacggataccagatgacgtcactccctcaaaccatgatcgagcacttcccacccatgcacagaatgcacgaagctccatacttatacgggttatccagtggtggtccaagcaaccttacacccccaccacactacacatcgtatgatcatgaccgcagagttgaagaaccatcccacaacacaatacccacaccccctagctcagccaaccaaccatcgcccgatcacgaccaccacggctctcatatgcaaccgctagacggcggtatataccaagcatcgttgagtggtatgcacgtaggccatcaacaccatgcactagttggcgcccaagctactgaccaatcagcttcgtccatgatcgttcctccaatgactgccctgcagaatcctgccaacttccatactgccgagggttattggcagtcaggcgtccaaggctaaacaaccgcaaaagtgacgttcgatagttcagtcagtacgccatgtttgagttaacctatatattataattcgggcacttgtgtgtggtgaatggccatgagatgatgcccaaactacctccctagtcaaagttaatttatgaacatttccgtaacgcccgtcgtgtattaatctttatatatataagcgcattgaggcgtttatgacttatttacttttgcttgacttgttctgcaaacaatattatacaatgtactatataatgataattaaacggaactgtttcttgtactccgtgaatactgatttgtgctcgttgaaataaatgtcccattcatgtttaaaa
//

by @meso_cacase at DBCLS
This page is licensed under a Creative Commons Attribution 4.0 International License (CC BY 4.0).

If you use GGRNA in your work, please cite:
Naito Y, Bono H. (2012)
GGRNA: an ultrafast, transcript-oriented search engine for genes and transcripts.
Nucleic Acids Res., 40, W592-W596. [Full Text]