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

2024-03-29 14:58:00, GGRNA.v2 : RefSeq release 222 (Jan, 2024)

LOCUS       NM_001139572             925 bp    mRNA    linear   VRT 10-JAN-2022
DEFINITION  Salmo salar homeo box A9b (hoxa9b), mRNA.
ACCESSION   NM_001139572
VERSION     NM_001139572.1
KEYWORDS    RefSeq.
SOURCE      Salmo salar (Atlantic salmon)
  ORGANISM  Salmo salar
            Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi;
            Actinopterygii; Neopterygii; Teleostei; Protacanthopterygii;
            Salmoniformes; Salmonidae; Salmoninae; Salmo.
REFERENCE   1  (bases 1 to 925)
  AUTHORS   Mungpakdee S, Seo HC, Angotzi AR, Dong X, Akalin A and Chourrout D.
  TITLE     Differential evolution of the 13 Atlantic salmon Hox clusters
  JOURNAL   Mol Biol Evol 25 (7), 1333-1343 (2008)
   PUBMED   18424774
COMMENT     PROVISIONAL REFSEQ: This record has not yet been subject to final
            NCBI review. The reference sequence was derived from EU025702.1.
            
            ##Evidence-Data-START##
            Transcript exon combination :: EF695322.1 [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMN02864171 [ECO:0000348]
            ##Evidence-Data-END##
FEATURES             Location/Qualifiers
     source          1..925
                     /organism="Salmo salar"
                     /mol_type="mRNA"
                     /db_xref="taxon:8030"
                     /chromosome="ssa02"
                     /map="ssa02"
     gene            1..925
                     /gene="hoxa9b"
                     /note="homeo box A9b"
                     /db_xref="GeneID:100194482"
     exon            1..597
                     /gene="hoxa9b"
                     /inference="alignment:Splign:2.1.0"
     CDS             45..836
                     /gene="hoxa9b"
                     /note="homeobox protein HoxA9b"
                     /codon_start=1
                     /product="homeobox protein Hox-A9b"
                     /protein_id="NP_001133044.1"
                     /db_xref="GeneID:100194482"
                     /translation="
MSTLGTLSYYADSHLPRDQGDIMAHTYSSGPGLEQASQPMLTEYGGQESCPLQTKSSIFSASWSPISAHQPPSSASITHQPYLHHHCPTGDTDGMFMRSWALEPVSTSICLTGLSSNMNYDIKPEPLIGNGDCTTLETHTPLVSDIDNGPFRAEKDTIACDAIFSKPNEESSTSTVEEKREINTNDPSSNWLHAKSSRKKRCPYSKHQILELEKEFLFNMYLPRDRRYEVARVLHLTERQIKIWFQNRRMKMKKGNKDRRKTC"
     misc_feature    45..593
                     /gene="hoxa9b"
                     /note="Hox9 activation region; Region: Hox9_act;
                     pfam04617"
                     /db_xref="CDD:428038"
     misc_feature    order(636..650,654..656,705..707,723..725,762..764,
                     768..773,780..785,789..797,801..806)
                     /gene="hoxa9b"
                     /note="DNA binding site [nucleotide binding]"
                     /db_xref="CDD:238039"
     misc_feature    642..803
                     /gene="hoxa9b"
                     /note="Homeobox domain; Region: Homeobox; pfam00046"
                     /db_xref="CDD:425441"
     misc_feature    order(642..644,651..653,771..773,780..785,792..794)
                     /gene="hoxa9b"
                     /note="specific DNA base contacts [nucleotide binding];
                     other site"
                     /db_xref="CDD:238039"
     exon            598..925
                     /gene="hoxa9b"
                     /inference="alignment:Splign:2.1.0"
ORIGIN      
tccagtggaagtttagttgcctttggctttgtgtatttgttgtcatgtcgacattaggcacgcttagttactatgcagactctcatcttccccgcgaccaaggggatattatggcacacacatactcaagcggaccagggctggaacaggcgagccagccgatgctaactgaatatggcggtcaggaatcttgccctttgcagacgaaatcttctattttcagtgcgtcttggagtcccatttctgctcatcagcccccgagcagcgcctctataacacaccagccctatttacaccaccattgtccaacaggagataccgatgggatgtttatgcgttcctgggcgttggaaccggtttctacgtcgatatgtttaacgggattatcgtcaaatatgaactatgatatcaaaccggagccgctgataggaaatggggactgcacaacgctggaaacgcacacacctcttgtgtccgacattgacaacggaccgttccgcgcagagaaggatacgattgcgtgtgatgccattttctccaaacccaacgaagagagcagcacatcaaccgtagaggaaaagagggagatcaacacaaatgacccatcttccaactggcttcatgcaaaatccagcagaaaaaagcgctgtccatactctaagcatcagattctggaactggagaaggagtttctgtttaacatgtatctcccccgagaccgtagatacgaagtagcaagagttcttcatctgactgagagacaaattaaaatctggtttcagaaccgccggatgaagatgaagaaagggaataaggaccgtcgaaagacatgttaaaatgcgagcagtgcgggcctgtagacccgtagaataaactgtgaatacttacaattggtggactttcaggaaacgaagatatttctaga
//

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]