LOCUS       NR_174027               3697 bp    RNA     linear   VRT 24-SEP-2023
DEFINITION  Gallus gallus homeobox B1 (HOXB1), transcript variant 2, non-coding
            RNA.
ACCESSION   NR_174027
VERSION     NR_174027.1
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 3697)
  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 3697)
  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 3697)
  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 3697)
  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.
            
            Transcript Variant: This variant (2) has the short intron which
            introduces a translation termination in the first exon. Thus the
            transcript is a NMD candidate.
            
            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 :: SRR13267654.168146.1,
                                           SRR13267651.33265.1 [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMEA103992415, SAMEA103992432
                                           [ECO:0000348]
            ##Evidence-Data-END##
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-2261              JAENSK010000364.1  800011-802271
            2262-3697           JAENSK010000364.1  802368-803803
FEATURES             Location/Qualifiers
     source          1..3697
                     /organism="Gallus gallus"
                     /mol_type="transcribed RNA"
                     /db_xref="taxon:9031"
                     /chromosome="27"
                     /map="27"
     gene            1..3697
                     /gene="HOXB1"
                     /gene_synonym="Ghox-lab; HOXB-1"
                     /note="homeobox B1"
                     /db_xref="CGNC:10116"
                     /db_xref="GeneID:395900"
     misc_RNA        1..3697
                     /gene="HOXB1"
                     /gene_synonym="Ghox-lab; HOXB-1"
                     /product="homeobox B1, transcript variant 2"
                     /db_xref="GeneID:395900"
                     /db_xref="CGNC:10116"
     exon            1..2261
                     /gene="HOXB1"
                     /gene_synonym="Ghox-lab; HOXB-1"
                     /inference="alignment:Splign:2.1.0"
     misc_feature    1046..1810
                     /gene="HOXB1"
                     /gene_synonym="Ghox-lab; HOXB-1"
                     /inference="COORDINATES:
                     alignment:Blast2seq::RefSeq|NM_001397963.1"
                     /note="primary ORF has stop codon >50 nucleotides from the
                     terminal splice site; nonsense-mediated decay (NMD)
                     candidate"
     exon            2262..3697
                     /gene="HOXB1"
                     /gene_synonym="Ghox-lab; HOXB-1"
                     /inference="alignment:Splign:2.1.0"
ORIGIN      

aggctcccaacagactcagggaaaggtcaaagcaggttcggtgtaggaaagcagagcttgaagttgcagcccctaaacccatcggttacagcccttaaaaacgtctcgtgttctcagaagtggatgtgtaggcaggtaggtacccaggaggaagggtggataggaagattggtggggttagtaaggacacatatgtggtttttagttcctctcctccagttgctaagctgggcatggtgtctctccaacaaaaggcattctgtcttcctaactttatttcatcgcctcattagaatacagatttaattacgttgcttttacccacactggccctacacacaaagccggagtgagaaaattaaggcacgtagagtgaatttttcataggagttttagtccggaaagttccaaatatgttcaagccacctttcaagggaaagtttctcaacgaagaggagagcatccttttgtagttggggcggtggagggaggaagcagtcagacctccctacctctttttcccctgtctgcctttcagatgaaacgaagatcggagaaaaccttttttttaagttggggaaggggaaattctgctgaaattggctaaccacatcactcgggagcctttttagcacttaaaacagtcgtagatcattctaattcttcccccaatcccctcttccccatcacctccccgcaccccacctccctcctctcttttaaagtctttgaggaaagattttgacgtattcgtgttgttatcagattgatgggcagggtttgattgaaacccctttgtcatgtaaatgtcatctccgtgatggatgagctcagagatgtgacaaacttcaggagcccctcgctcattgggctgggggcggaccacgtggcccccccgcccccaccccggccccgccgaaggctccggggttcgagggccagcgatgcatggaaggaagttttacagctttgacatactatctaaaggttgtagggcaggcggaatcccccccaaaacaggctgaccctcctccatcagtggcagatggacaatactaggatgaactccttcttagagtatgcaatttgtaaccgtgggacgggcgcctaccaccatttagagcaaagctccccttccttcccctcttgctcaggtagcccctccagtgacacttttcatggagaagggcgctacggtgcggggggcagcgcggtcgcggccgcccatctccccccgcagagccccggcttcttccccgccgcctccgggcgctccgtgcccttcgcggccgctgccccgagcgccgggtacccaacccaaaattgcagccccggctacgggcaccaccagctctacctcggccagcaggacgcggacggcgtgtacttccaggcggccgggtactcctccagcaccggaccccacctcggctccctggcagagggctattgtggggccgtagggcagtaccagcagcagcagcacctttacgggcaggagcagcccggttacttgcccggggtttacggcaacctctcgccttccctaaatgaggacaaagaccccgcgtgtccctccgagccgtgccccaatgccagcgcggcgcggaccttcgattggatgaaagtgaagaggaaccctcccaagacaggtgagtttggggcgctcagggctcggcgggggggggggggggggttcccatccgggctgaggagaagggcgggcggggggtggtcgttctgcagccctgctatgaaatgttgccttcccagttgtttctgctcgaggtcattgggctcctttgcctgaggaagacgcatttttattcttatttttaagctctatagaaaaaccagctagcgatttttcgggcacacctggcagaggtccctgagctcgcttgccttcaggcccaatgcagttttaagcccagctcggaataggaaacactcccagtttcctgcttcctccacaaaggtggcttccacctctctcattgttcaacatccttctctaaaaccttcctgaaatccggaacttccctcctcccccaccatctccccccccccctcccttccactccttcccacgcacgttcaagtttcatggcacttcgcagggagctgggaggaccgtttgcaagagaaaggagcagctctgcagatcccggggcagcatttccctccgggttacgtccctggaaagtcaggggtggctcaggagaagctgcgagaggtgggggcccaacacgcagcagaggccaaagtgtcggaatacgggctgctgggccagcccaacaccattcgcaccaacttcaccaccaagcagctgacggagctggagaaggagtttcactttaacaagtacctcacccgggcccggagggtggagatcgccgctacactggagctcaacgaaacccaagtcaagatctggttccagaacaggcggatgaaacagaagaagagggaaaaggaaggtctcgcccctcctgctgcctccaggtccgcgaaggaagcgagtgaagcctcggatcagtccaactgcacctcacctgaggcctcccccagctccgtgtcctcctgagccgcggttccgcggggcacaacgaccggatcggggctgccttcgagggccgctgctccccgccgctccccgcagcccgacccgcactgccccgcacagccccggccgcacacgcttccctccgagccgccccttcggctccggccgcctccacgcgtgcggtgcccattccccgtttgccttcctctcttaatttatagaccctccgtcaaacgttggactccaaaggagcggccgtgtcctcgtttatccttagcaataggcgtttgtctcagggacgtttctcccttctcccctcccccgataggaactgcactttcaactacagaaacttgaaaacgaatttagttctctcccgctttaaagatgtgcacaacgacttttgtccgcacgcaccctgagtttgctgtgttattcctcccctcgagacggctaaaacagaaaagtttggggtgctttttttttgtttcccttttacatttactctgtgtatctcggaaagagcccaaggcgctgaaggcctctgggaagacccgaaaaagaaaagaaacgaagcaaaaacgcaactcctctgctgccattttgcactatcgtcgctttacagggtttcctacacgctctccgcctgtattaccgatcctgggggtgggagcgttgtgctatcagataaaacgagataaggggaaggctgagcccggggtgctttgggcaacggtcattgccgcaccgagtgtgaacgtgcatgggacgaaggccgggggggtccgcactgcgctcccccaaccgcgatgcactgactgctatttattgtacgtctcgatagcctcacgtcttggggcgaagctgcacggctcctcgtatccccaccccctcaggcttatcggagtccgagaaaaacataattaaccacggccagttgctaccctttaccaccagaagctttagcgcagggcgaagtgaaaaccacggcgagtttcgttaaaggttgttttaaagagataaagggtcatcctgaaaagcctgtggtttcttaatcggaatctgttttccctctactcccttccctgtttttcgaaatgaaactacctcagtctaataaagtttactttt

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