LOCUS       NM_012581               1661 bp    mRNA    linear   ROD 24-NOV-2023
DEFINITION  Rattus norvegicus homeobox A2 (Hoxa2), mRNA.
ACCESSION   NM_012581
VERSION     NM_012581.3
KEYWORDS    RefSeq; RefSeq Select.
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 1661)
  AUTHORS   Wang M, Doucette JR and Nazarali AJ.
  TITLE     Conditional Tet-regulated over-expression of Hoxa2 in CG4 cells
            increases their proliferation and delays their differentiation into
            oligodendrocyte-like cells expressing myelin basic protein
  JOURNAL   Cell Mol Neurobiol 31 (6), 875-886 (2011)
   PUBMED   21479584
  REMARK    GeneRIF: The impact of Hoxa2 over-expression on the proliferation
            and differentiation of CG4-SHoxa2 cells was investigated.
REFERENCE   2  (bases 1 to 1661)
  AUTHORS   Alasti F, Sadeghi A, Sanati MH, Farhadi M, Stollar E, Somers T and
            Van Camp G.
  TITLE     A mutation in HOXA2 is responsible for autosomal-recessive microtia
            in an Iranian family
  JOURNAL   Am J Hum Genet 82 (4), 982-991 (2008)
   PUBMED   18394579
  REMARK    Erratum:[Am J Hum Genet. 2008 Sep;83(3):424]
REFERENCE   3  (bases 1 to 1661)
  AUTHORS   Florea L, Di Francesco V, Miller J, Turner R, Yao A, Harris M,
            Walenz B, Mobarry C, Merkulov GV, Charlab R, Dew I, Deng Z, Istrail
            S, Li P and Sutton G.
  TITLE     Gene and alternative splicing annotation with AIR
  JOURNAL   Genome Res 15 (1), 54-66 (2005)
   PUBMED   15632090
REFERENCE   4  (bases 1 to 1661)
  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   5  (bases 1 to 1661)
  AUTHORS   Patel CV, Gorski DH, LePage DF, Lincecum J and Walsh K.
  TITLE     Molecular cloning of a homeobox transcription factor from adult
            aortic smooth muscle
  JOURNAL   J Biol Chem 267 (36), 26085-26090 (1992)
   PUBMED   1361191
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            JACYVU010000142.1.
            
            On Mar 27, 2023 this sequence version replaced NM_012581.2.
            
            ##Evidence-Data-START##
            Transcript exon combination :: M91802.1, AW251417.1 [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMN16676784, SAMN16676806
                                           [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            RefSeq Select criteria :: based on conservation, expression,
                                      longest protein
            ##RefSeq-Attributes-END##
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-563               JACYVU010000142.1  4497909-4498471     c
            564-1661            JACYVU010000142.1  4496168-4497265     c
FEATURES             Location/Qualifiers
     source          1..1661
                     /organism="Rattus norvegicus"
                     /mol_type="mRNA"
                     /strain="BN"
                     /db_xref="taxon:10116"
                     /chromosome="4"
                     /map="4q24"
     gene            1..1661
                     /gene="Hoxa2"
                     /gene_synonym="hox-1.11; Hoxa-2; Hoxa11; Hoxa2l;
                     RATHOX111A"
                     /note="homeobox A2"
                     /db_xref="GeneID:103690123"
                     /db_xref="RGD:11468112"
     exon            1..563
                     /gene="Hoxa2"
                     /gene_synonym="hox-1.11; Hoxa-2; Hoxa11; Hoxa2l;
                     RATHOX111A"
                     /inference="alignment:Splign:2.1.0"
     misc_feature    80..82
                     /gene="Hoxa2"
                     /gene_synonym="hox-1.11; Hoxa-2; Hoxa11; Hoxa2l;
                     RATHOX111A"
                     /note="upstream in-frame stop codon"
     CDS             185..1303
                     /gene="Hoxa2"
                     /gene_synonym="hox-1.11; Hoxa-2; Hoxa11; Hoxa2l;
                     RATHOX111A"
                     /note="Homeobox gene A11; Homeobox gene A2; homeobox
                     protein Hox-1.11; homeo box A2"
                     /codon_start=1
                     /product="homeobox protein Hox-A2"
                     /protein_id="NP_036713.2"
                     /db_xref="GeneID:103690123"
                     /db_xref="RGD:11468112"
                     /translation="

MNYEFEREIGFINSQPSLAECLTSFPPVADTFQSSSIKTSTLSHSTLIPPPFEQTIPSLNPGSHPRQSAGAGGRPKSSPAGSRGSPVPARALQPPEYPWMKEKKAAKKTALPPAAASTGPACLGHKESLEIADGSGGGSRRLRTAYTNTQLLELEKEFHFNKYLCRPRRVEIAALLDLTERQVKVWFQNRRMKHKRQTQCKENQNSEGKFKNLEDSDKVEEDEEEKSLFEQALSVSGALLEREGYTFQQNALSQQQAPNGHNGDSQTFPVSPLTSNEKNLKHFQHQSPTVPNCLSTMGQNCGAGLNNDSPEALEVPSLQDFNVFSTDSCLQLSDALSPSLPGSLDSPVDISADSFDFFTDTLTTIDLQHLNY"

     misc_feature    308..472
                     /gene="Hoxa2"
                     /gene_synonym="hox-1.11; Hoxa-2; Hoxa11; Hoxa2l;
                     RATHOX111A"
                     /note="propagated from UniProtKB/Swiss-Prot (P31246.1);
                     Region: Disordered. /evidence=ECO:0000256|SAM:MobiDB-lite"
     misc_feature    470..487
                     /gene="Hoxa2"
                     /gene_synonym="hox-1.11; Hoxa-2; Hoxa11; Hoxa2l;
                     RATHOX111A"
                     /note="propagated from UniProtKB/Swiss-Prot (P31246.1);
                     Region: Antp-type hexapeptide"
     misc_feature    order(602..616,620..622,671..673,689..691,728..730,
                     734..739,746..751,755..763,767..772)
                     /gene="Hoxa2"
                     /gene_synonym="hox-1.11; Hoxa-2; Hoxa11; Hoxa2l;
                     RATHOX111A"
                     /note="DNA binding site [nucleotide binding]"
                     /db_xref="CDD:238039"
     misc_feature    order(608..610,617..619,737..739,746..751,758..760)
                     /gene="Hoxa2"
                     /gene_synonym="hox-1.11; Hoxa-2; Hoxa11; Hoxa2l;
                     RATHOX111A"
                     /note="specific DNA base contacts [nucleotide binding];
                     other site"
                     /db_xref="CDD:238039"
     misc_feature    611..769
                     /gene="Hoxa2"
                     /gene_synonym="hox-1.11; Hoxa-2; Hoxa11; Hoxa2l;
                     RATHOX111A"
                     /note="Homeobox domain; Region: Homeobox; pfam00046"
                     /db_xref="CDD:425441"
     misc_feature    764..859
                     /gene="Hoxa2"
                     /gene_synonym="hox-1.11; Hoxa-2; Hoxa11; Hoxa2l;
                     RATHOX111A"
                     /note="propagated from UniProtKB/Swiss-Prot (P31246.1);
                     Region: Disordered. /evidence=ECO:0000256|SAM:MobiDB-lite"
     exon            564..1661
                     /gene="Hoxa2"
                     /gene_synonym="hox-1.11; Hoxa-2; Hoxa11; Hoxa2l;
                     RATHOX111A"
                     /inference="alignment:Splign:2.1.0"
     misc_feature    596..778
                     /gene="Hoxa2"
                     /gene_synonym="hox-1.11; Hoxa-2; Hoxa11; Hoxa2l;
                     RATHOX111A"
                     /note="homeobox"
ORIGIN      

agtttaatagtagcgcggtccccatacggctgtaatcagtgaattagaaaaaaaacaccccagcagcgatcttctatgatagatttttttttccttcgctctcgcctttttcctgggccttgcccccccaaagcccctccaaaagagggaacttttcctccgagggggctccaaggagaaggccatgaattacgaatttgagcgagagattggttttatcaatagccagccgtcgctcgctgagtgcctgacatcttttccccctgtcgctgatacatttcaaagttcatcaatcaagacctcgacgctttcacactcgacactgattcctcctccttttgagcagaccattcccagcctgaacccgggcagtcaccctcgccaaagcgctggcgctggcggccgccccaagtcgagccccgcgggcagtcgcggcagcccggtgcccgcccgcgccctgcagccgcctgagtacccctggatgaaggagaagaaggcggccaagaaaaccgcgctgccgcccgccgccgcctccacgggccctgcctgcctcggccacaaagaatccctggaaatagccgatggcagcggtgggggatccaggcgtctgagaactgcttacaccaacactcagcttttggaactggaaaaggaatttcatttcaacaagtacctctgcagaccccggagggtggaaatcgccgcgctgctggatttgaccgagagacaagtgaaagtgtggtttcagaaccggaggatgaagcataagaggcaaacccagtgcaaggagaaccaaaacagcgaagggaaatttaaaaacctggaggattcggacaaagtggaggaagacgaggaagagaagtcactctttgagcaagccctcagtgtctccggggcccttctggagagggaaggttacacttttcagcaaaacgcgctctctcaacagcaggctcccaatggacacaatggcgactcccaaactttcccagtttcgcctttaaccagcaatgagaaaaatttgaaacattttcagcaccagtcacccactgttcctaactgcttgtcaacaatgggccagaactgtggagctggcctaaacaatgacagtcccgaggccctcgaggtcccctctttgcaggactttaatgttttctccacagattcctgcctgcagctttcagacgcactgtcgcccagtttgccaggctccctggacagtcctgtagatatttcagctgacagctttgacttttttacagacacactcaccacaatcgacctacagcatctgaattactaagaacattaaagcaaaagaaagcttcacaaaacaaaacgcctttggccaggtggctttgccttcttttattccgggagttgattttcgttctattctcttctcgatctacccctgttctcttaaatgttcaggactttctgttttacacccagtttgaaagccatctcttccaaatgatgttggcgttctaagtgttttacaccgaacccaacaagcttctatgtgattttcctgaaaacaaaacacgaggcctgcaagaaagtgaccataagttgtcttgtcactttctttttatttttgtaccacattaggatgcattgtcatgcgtatttttggtagaataaactctcctctgcta

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