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

2024-03-29 19:13:25, GGRNA.v2 : RefSeq release 222 (Jan, 2024)

LOCUS       XM_026833761            2358 bp    mRNA    linear   INV 22-OCT-2018
DEFINITION  PREDICTED: Ciona intestinalis homeobox transcription factor hox2
            (hox2), transcript variant X2, mRNA.
ACCESSION   XM_026833761
VERSION     XM_026833761.1
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_020166.2) 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..2358
                     /organism="Ciona intestinalis"
                     /mol_type="mRNA"
                     /db_xref="taxon:7719"
                     /chromosome="1"
     gene            1..2358
                     /gene="hox2"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Gnomon. Supporting evidence
                     includes similarity to: 1 mRNA, 2 ESTs, 10 Proteins, and
                     100% coverage of the annotated genomic feature by RNAseq
                     alignments, including 3 samples with support for all
                     annotated introns"
                     /db_xref="GeneID:619238"
     CDS             344..2302
                     /gene="hox2"
                     /codon_start=1
                     /product="uncharacterized protein hox2"
                     /protein_id="XP_026689562.1"
                     /db_xref="GeneID:619238"
                     /translation="
MIRETGFINSQPTFAECLNIVSSGIEDNASDVYRKSPIAAAFDRVQQKEETIADSTGSSLHSDCSPTSSRPVSLAFSPISTVSNSPRGKMGFVGPQNNSTVPCASTSATSQSHHYQQSHMSSEYIQGSNFRPHNPPYAPRIQEPTHFDPRFSYRPQFDAPHSAYEEPQDHGAFTLAPPDPPYRGIPSYPTAHVYPVDPFLQYQRSDYDVIRDEQCPDFPWMREKKSGEKTSEGRRVRPAGASRRLRTAYTNTQLLELEKEFHYNKYLCRPRRIEIATLLDLTERQVKVWFQNRRMKHKRQQLQQSQKDNDDSDVTSADEKNDVKETGSDVESDKNDDVTSLEASESGNGKSRHSSSDDVTDDESKVAVPSSPVVKREKYKKSEKKFENIQCGTESAKSSVHDAAVSENVKSEEVLSPKDETVDDVFNTSQTSHVTTSVTTRCHLHMKCSVDHRNFDNNWQHSVNESTKTADQAVTCTHPMNMEHSFPQATFMQRHHTTTANGMYKPLGVITQQDEWHSHTLQGKTHNNEYAYTTQHKHEVPHPTYPPWKPPPQPITHNYHSKPFPLFDSNVNSYNYNNGFDSSFRPSKYRPFIPDNGYSPTHDVNRQQIPHPEWKAPMGKYPKPYTPQYESHGVNISQTAGLLSNAQKLLDL"
     misc_feature    order(1070..1084,1088..1090,1139..1141,1157..1159,
                     1196..1198,1202..1207,1214..1219,1223..1231,1235..1240)
                     /gene="hox2"
                     /note="DNA binding site [nucleotide binding]"
                     /db_xref="CDD:238039"
     misc_feature    order(1076..1078,1085..1087,1205..1207,1214..1219,
                     1226..1228)
                     /gene="hox2"
                     /note="specific DNA base contacts [nucleotide binding];
                     other site"
                     /db_xref="CDD:238039"
     misc_feature    1079..1237
                     /gene="hox2"
                     /note="Homeobox domain; Region: Homeobox; pfam00046"
                     /db_xref="CDD:425441"
ORIGIN      
gttacgcaataatggcgtttgcgacgtgatactttcatccattttgttgtgcgttagttttattttaattgtatctatttgttaactatatgaaatttgttcataatcttgattgcagtgtcattgttatgatgcagccatattatttcacaaatcaaatttggacgtaacaatcagtgtattatgaagtaactttactttttaagtatgtatgcgacaacaatattattttaatatttcatttatgcgacaacaatctcgattcatgacaagtacaaatgtgcaattgtgacgtatttacatcagacgttaagttaggaaagatgtgagccaggatccagagatgattcgcgagactgggttcatcaattcgcaacctacgttcgcagagtgccttaatattgtaagttctggtatagaggacaatgcttctgacgtttatcgaaagtcgccgattgcagccgcgtttgatcgcgtacaacagaaggaagagacaatagcagattccacaggcagcagcttgcacagcgactgcagcccgacgtcttcgcgaccagtgtcgctcgccttctcaccgatatcgacggtttcgaactcgccccgcgggaaaatgggcttcgtcggcccgcagaataactcaacagttccgtgcgcttcaacttcagccacaagccaaagtcatcactaccaacaaagtcatatgtcatcggaatatattcagggttctaactttagaccccataacccaccctatgcaccaaggatacaggaacctacccacttcgaccccagatttagctaccggccccaattcgacgcccctcacagtgcatacgaagaaccccaggatcacggagcgtttacgttagccccacctgacccaccctacaggggaatcccctcttaccccacagctcatgtgtacccagtggatccattcttgcaatatcaaagaagtgattatgacgtaataagagacgaacaatgcccggattttccatggatgagagaaaagaaatctggggaaaaaacgtcagaaggaagaagagttcggcccgcgggcgcatccaggagactacggactgcttacaccaacacccaactgctggaactagagaaggagtttcattataacaaatacctttgccgaccaagaagaattgaaattgcgaccctgctcgacctgactgagagacaggtcaaagtttggtttcagaaccgtcgaatgaaacacaaacgtcaacaattacaacaatcacaaaaagacaatgacgattctgacgtaacaagcgccgacgaaaaaaatgacgtcaaagaaaccggtagtgacgtcgagtcggataaaaacgatgatgtcacttcccttgaagcatcggagagtggaaatggcaaatcacgtcattcttcaagtgatgacgtaactgatgacgaaagcaaggtagctgtcccttcctccccagtcgttaaaagagaaaaatacaaaaagtcggaaaagaaatttgaaaatattcaatgcggtactgagagtgccaagtcatcggtgcatgacgctgcagtttccgaaaatgtcaaaagcgaagaagtattaagtcccaaagacgagacagttgatgacgtgtttaatacgtcacaaacctcccacgtcacgaccagtgttaccacacgttgtcatctgcacatgaagtgcagtgttgaccacagaaattttgacaataactggcaacactctgtgaatgaaagcacaaagacagcagaccaagcagtcacatgcacacatcccatgaacatggaacactcctttcctcaagcaacgttcatgcagcgccaccatacgaccactgccaacggaatgtataaaccgctaggtgtcataacgcagcaggacgaatggcatagccacacactgcaaggcaagacacataacaatgaatacgcttacaccactcagcataaacatgaagtgccccatcccacctaccccccatggaaacccccaccccaacccatcacccataactatcattcaaaacccttccctttattcgatagcaacgtaaactcttacaactacaacaacggtttcgactccagctttcgcccaagtaaataccgacccttcattcccgataacgggtattccccaactcatgacgtaaaccggcagcaaatccctcaccccgaatggaaagcccctatggggaagtaccccaaaccgtacacccctcaatatgagagccacggtgttaacatatcgcaaacagctggcttactgagcaacgctcagaaactgctggatttgtaatttatatcatttgtactaatcgttgtgtgacgtcagcaataaaagcgctaaacata
//

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]