2024-03-28 18:46:21, GGRNA.v2 : RefSeq release 222 (Jan, 2024)
LOCUS NM_001139563 995 bp mRNA linear VRT 28-JUN-2020 DEFINITION Salmo salar homeobox A1a (hoxa1a), mRNA. ACCESSION NM_001139563 VERSION NM_001139563.2 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 995) 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 EF695309.1. On Apr 10, 2020 this sequence version replaced NM_001139563.1. ##Evidence-Data-START## Transcript exon combination :: EF695309.1 [ECO:0000332] RNAseq introns :: single sample supports all introns SAMN02863984, SAMN02864156 [ECO:0000348] ##Evidence-Data-END## PRIMARY REFSEQ_SPAN PRIMARY_IDENTIFIER PRIMARY_SPAN COMP 1-995 EF695309.1 2-996 FEATURES Location/Qualifiers source 1..995 /organism="Salmo salar" /mol_type="mRNA" /db_xref="taxon:8030" /chromosome="ssa14" /map="ssa14" gene 1..995 /gene="hoxa1a" /gene_synonym="hoxa1; hoxa1aa" /note="homeobox A1a" /db_xref="GeneID:100194473" exon 1..624 /gene="hoxa1a" /gene_synonym="hoxa1; hoxa1aa" /inference="alignment:Splign:2.1.0" CDS 9..995 /gene="hoxa1a" /gene_synonym="hoxa1; hoxa1aa" /note="homeobox protein HoxA1aa; homeobox A1" /codon_start=1 /product="homeobox protein Hox-A1a" /protein_id="NP_001133035.1" /db_xref="GeneID:100194473" /translation="
MSSFLDYSVMSGDGGSCSVRAFHSDHGITTFQSCAVTVNNCGADERFMPNRSSPDGIPHQTGSYQTPTGSLGLAYGAHPACGSGYGPQGFCATYNHYALNQEVESATGFPQCAPLMYSGNISSSMVPQLRQGYGGAPMGQLQYAHATYGGGHEQANLPPFSGCSNPLSPLHAAHLDSCCSPLSSESASNAQTFDWMKVKRNPPKTGRSGEYGYGGQSNTVRTNFTTKQLTELEKEFHFNKYLTRARRVEIAAALQLNETQVKIWFQNRRMKQKKREKECLLPTNAAVSDPRDSCPEKAAGSERSLSAPSTPSPASSTVSSGVDPYSSS"
misc_feature 501..>830 /gene="hoxa1a" /gene_synonym="hoxa1; hoxa1aa" /note="Homeodomain-containing transcription factor [Transcription]; Region: COG5576" /db_xref="CDD:227863" misc_feature order(669..674,678..680,729..731,747..749,786..788, 792..797,804..809,813..821,825..830) /gene="hoxa1a" /gene_synonym="hoxa1; hoxa1aa" /note="DNA binding site [nucleotide binding]" /db_xref="CDD:238039" misc_feature 669..827 /gene="hoxa1a" /gene_synonym="hoxa1; hoxa1aa" /note="Homeobox domain; Region: Homeobox; pfam00046" /db_xref="CDD:425441" misc_feature order(675..677,795..797,804..809,816..818) /gene="hoxa1a" /gene_synonym="hoxa1; hoxa1aa" /note="specific DNA base contacts [nucleotide binding]; other site" /db_xref="CDD:238039" exon 625..995 /gene="hoxa1a" /gene_synonym="hoxa1; hoxa1aa" /inference="alignment:Splign:2.1.0" ORIGIN
atgctacaatgagcagcttcttagattactctgtgatgagcggcgacggcgggtcctgctcagtcagggctttccactccgaccacggaattactacattccagtcctgtgcagtcaccgtgaacaactgtggggcggatgagcgcttcatgcccaataggtcttccccggatggcatccctcaccaaacggggtcctaccagactcctactggctctctgggtttagcctatggggcccatcctgcttgcggctcaggctatggaccccagggcttctgtgccacctacaaccattacgcactgaaccaggaagtggagtcggccacgggtttcccccagtgcgccccattaatgtactccggcaacatttcctcgtccatggtaccacagcttcgccaaggttacgggggagcgcccatgggtcagctccagtacgctcacgccacctatggtggcgggcacgagcaggcgaacctgcctcctttctctgggtgttcaaacccgctgtcacccctgcacgcggcccaccttgactcgtgctgctcgcccctgtcctccgagagcgcctccaacgcacagaccttcgattggatgaaagtgaagaggaacccgcccaagacaggcagatcaggggagtatggctatggggggcagtccaacaccgtccggaccaacttcaccaccaaacaactcaccgagcttgagaaggagttccacttcaacaagtatttgacccgcgcgcggcgcgtggagatcgcggcagcgcttcagctgaacgagactcaggtcaaaatctggttccagaaccgcaggatgaaacagaagaagcgcgagaaggaatgcctgctgcccaccaatgccgcagtgtcagacccgagggatagctgcccggaaaaagcagccggatctgagaggtccctctccgctccctccaccccgtctccagcctcttcaacagtgtcctctggggttgacccatactcctccagctaa
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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.
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