2024-04-28 23:15:02, GGRNA.v2 : RefSeq release 222 (Jan, 2024)
LOCUS NM_001080859 2163 bp mRNA linear VRT 24-SEP-2023 DEFINITION Gallus gallus homeobox B1 (HOXB1), transcript variant 1, mRNA. ACCESSION NM_001080859 XM_001234950 VERSION NM_001080859.5 KEYWORDS RefSeq. SOURCE Gallus gallus (chicken) ORGANISM Gallus gallus Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Archelosauria; Archosauria; Dinosauria; Saurischia; Theropoda; Coelurosauria; Aves; Neognathae; Galloanserae; Galliformes; Phasianidae; Phasianinae; Gallus. REFERENCE 1 (bases 1 to 2163) AUTHORS Tang H, Finn RD and Thomas PD. TITLE TreeGrafter: phylogenetic tree-based annotation of proteins with Gene Ontology terms and other annotations JOURNAL Bioinformatics 35 (3), 518-520 (2019) PUBMED 30032202 REFERENCE 2 (bases 1 to 2163) AUTHORS Burge S, Kelly E, Lonsdale D, Mutowo-Muellenet P, McAnulla C, Mitchell A, Sangrador-Vegas A, Yong SY, Mulder N and Hunter S. TITLE Manual GO annotation of predictive protein signatures: the InterPro approach to GO curation JOURNAL Database (Oxford) 2012, bar068 (2012) PUBMED 22301074 REMARK Publication Status: Online-Only REFERENCE 3 (bases 1 to 2163) AUTHORS Peale FV Jr, Mason K, Hunter AW and Bothwell M. TITLE Multiplex display polymerase chain reaction amplifies and resolves related sequences sharing a single moderately conserved domain JOURNAL Anal Biochem 256 (2), 158-168 (1998) PUBMED 9473273 REFERENCE 4 (bases 1 to 2163) AUTHORS Sundin OH, Busse HG, Rogers MB, Gudas LJ and Eichele G. TITLE Region-specific expression in early chick and mouse embryos of Ghox-lab and Hox 1.6, vertebrate homeobox-containing genes related to Drosophila labial JOURNAL Development 108 (1), 47-58 (1990) PUBMED 1693558 COMMENT VALIDATED REFSEQ: This record has undergone validation or preliminary review. The reference sequence was derived from JAENSK010000364.1. On Dec 14, 2021 this sequence version replaced NM_001080859.4. Transcript Variant: This variant (1) has the long intron. The encoded protein is conserved in birds. Sequence Note: The RefSeq transcript and protein were derived from genomic sequence to make the sequence consistent with the reference genome assembly. The genomic coordinates used for the transcript record were based on alignments. ##Evidence-Data-START## Transcript exon combination :: SRR13267655.158692.1, SRR13267653.16507.1 [ECO:0000332] RNAseq introns :: single sample supports all introns SAMEA103992440, SAMEA3109051 [ECO:0000348] ##Evidence-Data-END## PRIMARY REFSEQ_SPAN PRIMARY_IDENTIFIER PRIMARY_SPAN COMP 1-723 JAENSK010000364.1 800940-801662 724-2163 JAENSK010000364.1 802368-803807 FEATURES Location/Qualifiers source 1..2163 /organism="Gallus gallus" /mol_type="mRNA" /db_xref="taxon:9031" /chromosome="27" /map="27" gene 1..2163 /gene="HOXB1" /gene_synonym="Ghox-lab; HOXB-1" /note="homeobox B1" /db_xref="CGNC:10116" /db_xref="GeneID:395900" exon 1..723 /gene="HOXB1" /gene_synonym="Ghox-lab; HOXB-1" /inference="alignment:Splign:2.1.0" misc_feature 63..65 /gene="HOXB1" /gene_synonym="Ghox-lab; HOXB-1" /note="upstream in-frame stop codon" CDS 117..1049 /gene="HOXB1" /gene_synonym="Ghox-lab; HOXB-1" /note="isoform 1 is encoded by transcript variant 1; homeobox-containing transcription factor Hoxb-1; homeobox protein Hox-B1" /codon_start=1 /product="homeobox protein Hox-B1 isoform 1" /protein_id="NP_001074328.2" /db_xref="CGNC:10116" /db_xref="GeneID:395900" /translation="
MDNTRMNSFLEYAICNRGTGAYHHLEQSSPSFPSCSGSPSSDTFHGEGRYGAGGSAVAAAHLPPQSPGFFPAASGRSVPFAAAAPSAGYPTQNCSPGYGHHQLYLGQQDADGVYFQAAGYSSSTGPHLGSLAEGYCGAVGQYQQQQHLYGQEQPGYLPGVYGNLSPSLNEDKDPACPSEPCPNASAARTFDWMKVKRNPPKTAKVSEYGLLGQPNTIRTNFTTKQLTELEKEFHFNKYLTRARRVEIAATLELNETQVKIWFQNRRMKQKKREKEGLAPPAASRSAKEASEASDQSNCTSPEASPSSVSS"
misc_feature order(768..773,777..779,828..830,846..848,885..887, 891..896,903..908,912..920,924..929) /gene="HOXB1" /gene_synonym="Ghox-lab; HOXB-1" /note="DNA binding site [nucleotide binding]" /db_xref="CDD:238039" misc_feature 768..926 /gene="HOXB1" /gene_synonym="Ghox-lab; HOXB-1" /note="Homeobox domain; Region: Homeobox; pfam00046" /db_xref="CDD:425441" misc_feature order(774..776,894..896,903..908,915..917) /gene="HOXB1" /gene_synonym="Ghox-lab; HOXB-1" /note="specific DNA base contacts [nucleotide binding]; other site" /db_xref="CDD:238039" exon 724..2163 /gene="HOXB1" /gene_synonym="Ghox-lab; HOXB-1" /inference="alignment:Splign:2.1.0" ORIGIN
gttcgagggccagcgatgcatggaaggaagttttacagctttgacatactatctaaaggttgtagggcaggcggaatcccccccaaaacaggctgaccctcctccatcagtggcagatggacaatactaggatgaactccttcttagagtatgcaatttgtaaccgtgggacgggcgcctaccaccatttagagcaaagctccccttccttcccctcttgctcaggtagcccctccagtgacacttttcatggagaagggcgctacggtgcggggggcagcgcggtcgcggccgcccatctccccccgcagagccccggcttcttccccgccgcctccgggcgctccgtgcccttcgcggccgctgccccgagcgccgggtacccaacccaaaattgcagccccggctacgggcaccaccagctctacctcggccagcaggacgcggacggcgtgtacttccaggcggccgggtactcctccagcaccggaccccacctcggctccctggcagagggctattgtggggccgtagggcagtaccagcagcagcagcacctttacgggcaggagcagcccggttacttgcccggggtttacggcaacctctcgccttccctaaatgaggacaaagaccccgcgtgtccctccgagccgtgccccaatgccagcgcggcgcggaccttcgattggatgaaagtgaagaggaaccctcccaagacagccaaagtgtcggaatacgggctgctgggccagcccaacaccattcgcaccaacttcaccaccaagcagctgacggagctggagaaggagtttcactttaacaagtacctcacccgggcccggagggtggagatcgccgctacactggagctcaacgaaacccaagtcaagatctggttccagaacaggcggatgaaacagaagaagagggaaaaggaaggtctcgcccctcctgctgcctccaggtccgcgaaggaagcgagtgaagcctcggatcagtccaactgcacctcacctgaggcctcccccagctccgtgtcctcctgagccgcggttccgcggggcacaacgaccggatcggggctgccttcgagggccgctgctccccgccgctccccgcagcccgacccgcactgccccgcacagccccggccgcacacgcttccctccgagccgccccttcggctccggccgcctccacgcgtgcggtgcccattccccgtttgccttcctctcttaatttatagaccctccgtcaaacgttggactccaaaggagcggccgtgtcctcgtttatccttagcaataggcgtttgtctcagggacgtttctcccttctcccctcccccgataggaactgcactttcaactacagaaacttgaaaacgaatttagttctctcccgctttaaagatgtgcacaacgacttttgtccgcacgcaccctgagtttgctgtgttattcctcccctcgagacggctaaaacagaaaagtttggggtgctttttttttgtttcccttttacatttactctgtgtatctcggaaagagcccaaggcgctgaaggcctctgggaagacccgaaaaagaaaagaaacgaagcaaaaacgcaactcctctgctgccattttgcactatcgtcgctttacagggtttcctacacgctctccgcctgtattaccgatcctgggggtgggagcgttgtgctatcagataaaacgagataaggggaaggctgagcccggggtgctttgggcaacggtcattgccgcaccgagtgtgaacgtgcatgggacgaaggccgggggggtccgcactgcgctcccccaaccgcgatgcactgactgctatttattgtacgtctcgatagcctcacgtcttggggcgaagctgcacggctcctcgtatccccaccccctcaggcttatcggagtccgagaaaaacataattaaccacggccagttgctaccctttaccaccagaagctttagcgcagggcgaagtgaaaaccacggcgagtttcgttaaaggttgttttaaagagataaagggtcatcctgaaaagcctgtggtttcttaatcggaatctgttttccctctactcccttccctgtttttcgaaatgaaactacctcagtctaataaagtttactttttcca
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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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