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2019-03-23 03:24:14, GGRNA.v2 : RefSeq release 92 (Jan, 2019)

LOCUS       NM_024350               1518 bp    mRNA    linear   ROD 22-DEC-2018
DEFINITION  Rattus norvegicus homeo box A4 (Hoxa4), mRNA.
ACCESSION   NM_024350
VERSION     NM_024350.1
KEYWORDS    RefSeq.
SOURCE      Rattus norvegicus (Norway rat)
  ORGANISM  Rattus norvegicus
            Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi;
            Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha;
            Muroidea; Muridae; Murinae; Rattus.
REFERENCE   1  (bases 1 to 1518)
  AUTHORS   Zhao Y and Potter SS.
  TITLE     Functional comparison of the Hoxa 4, Hoxa 10, and Hoxa 11
            homeoboxes
  JOURNAL   Dev. Biol. 244 (1), 21-36 (2002)
   PUBMED   11900456
REFERENCE   2  (bases 1 to 1518)
  AUTHORS   Horan GS, Ramirez-Solis R, Featherstone MS, Wolgemuth DJ, Bradley A
            and Behringer RR.
  TITLE     Compound mutants for the paralogous hoxa-4, hoxb-4, and hoxd-4
            genes show more complete homeotic transformations and a
            dose-dependent increase in the number of vertebrae transformed
  JOURNAL   Genes Dev. 9 (13), 1667-1677 (1995)
   PUBMED   7628700
REFERENCE   3  (bases 1 to 1518)
  AUTHORS   Sakoyama Y, Mizuta I, Ogasawara N and Yoshikawa H.
  TITLE     Cloning of rat homeobox genes
  JOURNAL   Biochem. Genet. 32 (9-10), 351-360 (1994)
   PUBMED   7702549
REFERENCE   4  (bases 1 to 1518)
  AUTHORS   Kostic D and Capecchi MR.
  TITLE     Targeted disruptions of the murine Hoxa-4 and Hoxa-6 genes result
            in homeotic transformations of components of the vertebral column
  JOURNAL   Mech. Dev. 46 (3), 231-247 (1994)
   PUBMED   7918106
REFERENCE   5  (bases 1 to 1518)
  AUTHORS   Gorski DH, LePage DF and Walsh K.
  TITLE     Cloning and sequence analysis of homeobox transcription factor
            cDNAs with an inosine-containing probe
  JOURNAL   BioTechniques 16 (5), 856-858 (1994)
   PUBMED   7915120
REFERENCE   6  (bases 1 to 1518)
  AUTHORS   Chung SY, Dai PH, Lei J, Riviere M, Levan G, Szpirer J and Szpirer
            C.
  TITLE     Chromosomal assignment of seven rat homeobox genes to rat
            chromosomes 3, 4, 7, and 10
  JOURNAL   Mamm. Genome 4 (9), 537-540 (1993)
   PUBMED   7906969
REFERENCE   7  (bases 1 to 1518)
  AUTHORS   Falzon,M., Sanderson,N. and Chung,S.Y.
  TITLE     Cloning and expression of rat homeo-box-containing sequences
  JOURNAL   Gene 54 (1), 23-32 (1987)
   PUBMED   2886401
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            AABR07073021.1.
            
            Summary: The protein encoded by this gene is likely a homeobox
            transcription factor. [provided by RefSeq, Sep 2015].
            
            Sequence Note: This RefSeq record was created genomic sequence data
            to make the sequence consistent with the reference genome assembly.
            The genomic coordinates used for the transcript record were based
            on transcript alignments and orthologous data.
            
            ##Evidence-Data-START##
            Transcript exon combination :: CK366967.1 [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMN01906347, SAMN01906348
                                           [ECO:0000348]
            ##Evidence-Data-END##
            COMPLETENESS: complete on the 3' end.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-515               AABR07073021.1     139427-139941       c
            516-1518            AABR07073021.1     137933-138935       c
FEATURES             Location/Qualifiers
     source          1..1518
                     /organism="Rattus norvegicus"
                     /mol_type="mRNA"
                     /strain="mixed"
                     /db_xref="taxon:10116"
                     /chromosome="4"
                     /map="4q24"
     gene            1..1518
                     /gene="Hoxa4"
                     /gene_synonym="hox1.4; Hox1r2"
                     /note="homeo box A4"
                     /db_xref="GeneID:100912525"
                     /db_xref="RGD:2814"
     exon            1..515
                     /gene="Hoxa4"
                     /gene_synonym="hox1.4; Hox1r2"
                     /inference="alignment:Splign:2.1.0"
     CDS             5..862
                     /gene="Hoxa4"
                     /gene_synonym="hox1.4; Hox1r2"
                     /note="homeobox protein Hox-A4-like; Homeobox gene A4;
                     homeobox protein R2; homeobox A4-like"
                     /codon_start=1
                     /product="homeobox protein Hox-A4"
                     /protein_id="NP_077326.1"
                     /db_xref="GeneID:100912525"
                     /db_xref="RGD:2814"
                     /translation="
MTMSSFLINSNYIEPKFPPFEEFAPHGGPGGGDGGVGGGPGYPRPQSSPHLPAPNPHAARQTPAYYAPRAREPSYHGGLYPAPAAACPYACRGASPARPEQSPAPGAHPSPAPQPPAPPRRCAPGPTTPAVATGGSAPACPLLLADQGPAGPKGKEPVVYPWMKKIHVSAVNPSYNGGEPKRSRTAYTRQQVLELEKEFHFNRYLTRRRRIEIAHTLCLSERQVKIWFQNRRMKWKKDHKLPNTKMRSSNPASAPAGPPGKAQTHSPHPHPHPLPGASTPIPSSI"
     misc_feature    order(545..559,563..565,614..616,632..634,671..673,
                     677..682,689..694,698..706,710..715)
                     /gene="Hoxa4"
                     /gene_synonym="hox1.4; Hox1r2"
                     /note="DNA binding site [nucleotide binding]"
                     /db_xref="CDD:238039"
     misc_feature    551..712
                     /gene="Hoxa4"
                     /gene_synonym="hox1.4; Hox1r2"
                     /note="Homeobox domain; Region: Homeobox; pfam00046"
                     /db_xref="CDD:278475"
     misc_feature    order(551..553,560..562,680..682,689..694,701..703)
                     /gene="Hoxa4"
                     /gene_synonym="hox1.4; Hox1r2"
                     /note="specific DNA base contacts [nucleotide binding];
                     other site"
                     /db_xref="CDD:238039"
     exon            516..1518
                     /gene="Hoxa4"
                     /gene_synonym="hox1.4; Hox1r2"
                     /inference="alignment:Splign:2.1.0"
ORIGIN      
attaatgaccatgagctcgtttttgataaactccaactacatcgagcccaagttccctcccttcgaggagttcgcaccgcacggtggcccgggcggtggggacggcggcgtgggcgggggtcccggctacccgcggcctcagagctccccgcacctgccggccccgaacccgcacgcggcccgacagacccccgcatactacgcgccaagggcgcgcgagcccagctaccacgggggcctgtaccccgcgcccgccgccgcctgtccctacgcctgtcgcggggccagccccgcgcgacccgagcagtccccggcccccggcgcgcatcccagcccggccccgcagccccctgcgccccctcggcgctgcgctccgggccccaccaccccggctgtcgcgacggggggcagcgcccccgcgtgcccgctgctgctggcggaccagggccccgcgggcccgaagggcaaggagccggtggtgtacccctggatgaagaagatccacgtgagcgccgtcaaccccagttataacggaggtgagcccaagcgctctcgaaccgcctatacccggcagcaagtcttggagctggagaaggaattccactttaaccgatacctgacccggcgccgccgcatcgagatcgctcacacgctctgcttgtccgagcgccaggtcaagatctggttccagaaccggagaatgaagtggaagaaagaccacaaacttcccaacaccaagatgcgatcttccaaccctgcctcggcccctgccggcccgcctgggaaagcacaaactcacagcccacacccccatccccaccctctccccggtgcttccacacccattccctcgtctatataatctagagacctagatcagtttctgtcacttatgtgcccaactcatctcctgctcctgtcctcgtctgctccttcctaagtaaacctgagacaccaaaacaaaatccaacttgctggaaatcataaccaaaaagaagatattattcctggttggtgtctgtgtgtgacccccccaagaggacatctgtcctggttactgcttagtggaacaacctgctgacctggacaactttgccagggttggacacctgtaaggaagcactggtcatcgactacctttgagtccaccagacagcacgtgctgactggggacatgtatgtttgttgcaagcagaagaagcaggcagttccccagcttccttacctttctcttctgcattaaggcagctcacatgagctttactgagtagacattgtggacctcaccagattatttaattctcaaagtgtgtagaccttgatggtaggtgtggcatgtagtttcctctccttgcatttatttaagatactgttatagagatattgttgtcttattctggggcacagtcttggggagagggaaatgcatttagacccacttgcaactgtacagagcgatatggttgtataaagaggaatgtgctaagaataaacttcaatttataagacatttaaaaa
//

by @meso_cacase at DBCLS
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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]