LOCUS       NM_001416664            2738 bp    mRNA    linear   VRT 24-SEP-2023
DEFINITION  Gallus gallus homeobox B9 (HOXB9), mRNA.
ACCESSION   NM_001416664 XM_001233690 XM_040691973
VERSION     NM_001416664.1
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 2738)
  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 2738)
  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
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            JAENSK010000364.1.
            
            On or before Feb 14, 2023 this sequence version replaced
            XM_001233690.7, XM_040691973.2.
            
            ##Evidence-Data-START##
            Transcript exon combination :: SRR13267655.228053.1,
                                           ERR7564043.16810.1 [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMEA103992290, SAMEA103992323
                                           [ECO:0000348]
            ##Evidence-Data-END##
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-654               JAENSK010000364.1  703391-704044
            655-2738            JAENSK010000364.1  707301-709384
FEATURES             Location/Qualifiers
     source          1..2738
                     /organism="Gallus gallus"
                     /mol_type="mRNA"
                     /db_xref="taxon:9031"
                     /chromosome="27"
                     /map="27"
     gene            1..2738
                     /gene="HOXB9"
                     /note="homeobox B9"
                     /db_xref="CGNC:870"
                     /db_xref="GeneID:107055286"
     exon            1..654
                     /gene="HOXB9"
                     /inference="alignment:Splign:2.1.0"
     misc_feature    135..137
                     /gene="HOXB9"
                     /note="upstream in-frame stop codon"
     CDS             147..890
                     /gene="HOXB9"
                     /note="homeobox B9 HOXB9-1; homeobox B9 HOXB9-2"
                     /codon_start=1
                     /product="homeobox B9"
                     /protein_id="NP_001403593.1"
                     /db_xref="CGNC:870"
                     /db_xref="GeneID:107055286"
                     /translation="

MSISGTLSNYYVDSIISHESEDSPSAKFSSGQYTSSRQAGHNEHLEFPSCSFQPKPPVFSASWTPLNPHSSGTLPAVYHPYIQHQSVPSDSRYLRSWLDPVPRAETLPGQGSVKAEPLLGRPGDVHKQGTQEYNLETSAAREGIVSNQRPSFEDNKVCEGSEDKDRTDQTNPAASWLHARSSRKKRCPYTKYQTLELEKEFLFNMYLTRDRRHEVARLLNLSERQVKIWFQNRRMKMKKMNKEQGKE"

     misc_feature    147..653
                     /gene="HOXB9"
                     /note="Hox9 activation region; Region: Hox9_act;
                     pfam04617"
                     /db_xref="CDD:428038"
     misc_feature    order(693..707,711..713,762..764,780..782,819..821,
                     825..830,837..842,846..854,858..863)
                     /gene="HOXB9"
                     /note="DNA binding site [nucleotide binding]"
                     /db_xref="CDD:238039"
     misc_feature    699..860
                     /gene="HOXB9"
                     /note="Homeobox domain; Region: Homeobox; pfam00046"
                     /db_xref="CDD:425441"
     misc_feature    order(699..701,708..710,828..830,837..842,849..851)
                     /gene="HOXB9"
                     /note="specific DNA base contacts [nucleotide binding];
                     other site"
                     /db_xref="CDD:238039"
     exon            655..2738
                     /gene="HOXB9"
                     /inference="alignment:Splign:2.1.0"
ORIGIN      

aatcattttgctgggagctcacaacacagcagcccaactgtactttgttggctaggaagttcgagaagggggtagagtacaaatctagatctgtcctatatattttttttcccttcattgaaccgtgctttgtatgatgtctgagaatgtccatttctgggactcttagcaattactatgtcgactctattataagtcatgaaagtgaagactcgccttcagctaaattttcatctgggcaatatacaagttccaggcaagctgggcacaatgaacatctagaattcccctcttgtagttttcagccaaaacctccagttttcagcgcctcctggactcctttgaatccacattcttctggtacccttcctgccgtctaccatccatatattcaacatcaaagcgtcccatctgatagcaggtatctacggagctggctggatccagtgcccagagcagagaccctccccgggcagggatctgttaaggcagagccgctgctgggccgtcccggggatgtccataaacagggaacacaggagtacaatttagaaacttctgctgcaagggaagggatcgtttccaatcaaaggcccagcttcgaggacaataaagtttgtgaaggaagcgaagacaaagacagaacagatcaaaccaacccagctgccagctggctgcacgcccgctcctccaggaaaaagcgatgcccttacacgaaataccagaccctggaactagagaaggagtttttattcaatatgtacctgacgagggaccgtagacacgaagtggccagactcctcaacctgagtgagagacaagtcaaaatctggtttcagaaccgaaggatgaaaatgaagaaaatgaacaaggagcagggcaaggagtgagaagagcagcagagcagcaccctccccttcctcccctctcttccccccccgcccccccccaacccccagctccgagcacccgagctgtagtgcttacacacaacccgaaccacggggaaaaccttcccaatttcccatctccacctttgcatgcgagatgttgcttaatatcctttttaccctcttagcgttgccacgtaggaggcaacttagcaaaaaatagcgcagctcctctttggggggcaacatgctgggttttgtttctgttctcttgttgtctttctctatttccttttttttttcttctccccacagtgtaacacagacacaggctcctgtcggagcagcagctttccctgcttgcattctctccatggaaagcaagacggcaaacacaaccggccacaaacagccccgctccaaacccccaccaaagcacgctgcctttctttctccacgtaaggacaatgcttcacactcacagcacccggcgcacgcacacacacacacacacacacacacacacgttgaggtggccgaggaaccgaaggatttaattaaactgctgcaagacagacacattcgtaaggcttgcgtttaattgcacccaacaaatcattttcaattcgtcaactttacagtgggcaaatcgctcagtgacagccccactcccgactgcgctgggattctgtttccttcttcctttcttttttttttccctccttcctttattgttttttcgctttgttttatgatgcgggattttatttccatcttaccatggtagatatgtgactttgacctgaaagtttagtaggacccttccacaggcaaaccacccctccgaccccctcatctggtagttttatactgggtcacttggaagaggagagcagacggggggggggggaggaggagaggctgtgtggggggcacactcagagccgcattgtaaattatttaggagaaaaaggggcggaagaacccctgccaacttattcctaacttttagaggggaggaagaatgggattttctagttaaaaaactaccttcgtagtgctattaggggaggggaaggttgtgttcttagtgctagcatatttataatttattgtgaattgacttttcctaaagcagtaggctgttgcagagataaagtgccaaccctggcgtgtgtgtatttcttcccctcctgtttgctgagacgctgttaatgctcgtggtgctgtggagtttgggctgcagcggttcctggctccattcaccctccgttccggggccgccccaaccgtctccatccccgtccccatctccatctccatccccattcccgctcccatccgcgttcccatctccatccttatccccgtccccatctccatccccgtcccctctcctatccccatcccggctcaaagagcggcaccgggagctgcagcggctccgctctcccccccttctccctcaaagcactctctatagcccacccagccccgatggtttacggcgagggctcccggcattccggacggatgctttctgctctgacagatccgctgcaggtttctccccaaccatgcaggactgagtttcctttatctctgtaagacttcactttgttttgggaaggggggggagggagggagcgggaaggggggtggcgggggggggttggattagtatcagttgatgatatggtggctattgtaaaatgtggttgtggttgtgcttctgtgaatgtcgaagctcgttttctgtttctattgtggcttttaagtatacaaagagttcctcagttgttagttggtggaaaaaaaaatatggaaataaacctctctctttttctt

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