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2021-10-29 02:27:53, GGRNA.v2 : RefSeq release 207 (Jul, 2021)

LOCUS       NM_001109233             910 bp    mRNA    linear   ROD 22-JUN-2021
DEFINITION  Rattus norvegicus homeobox A7 (Hoxa7), mRNA.
ACCESSION   NM_001109233 XM_001056901 XM_575478
VERSION     NM_001109233.2
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 910)
  AUTHORS   Nishiyama A, Xin L, Sharov AA, Thomas M, Mowrer G, Meyers E, Piao
            Y, Mehta S, Yee S, Nakatake Y, Stagg C, Sharova L, Correa-Cerro LS,
            Bassey U, Hoang H, Kim E, Tapnio R, Qian Y, Dudekula D, Zalzman M,
            Li M, Falco G, Yang HT, Lee SL, Monti M, Stanghellini I, Islam MN,
            Nagaraja R, Goldberg I, Wang W, Longo DL, Schlessinger D and Ko MS.
  TITLE     Uncovering early response of gene regulatory networks in ESCs by
            systematic induction of transcription factors
  JOURNAL   Cell Stem Cell 5 (4), 420-433 (2009)
   PUBMED   19796622
REFERENCE   2  (bases 1 to 910)
  AUTHORS   Chung N, Jee BK, Chae SW, Jeon YW, Lee KH and Rha HK.
  TITLE     HOX gene analysis of endothelial cell differentiation in human bone
            marrow-derived mesenchymal stem cells
  JOURNAL   Mol Biol Rep 36 (2), 227-235 (2009)
   PUBMED   17972163
REFERENCE   3  (bases 1 to 910)
  AUTHORS   Ota T, Asahina H, Park SH, Huang Q, Minegishi T, Auersperg N and
            Leung PC.
  TITLE     HOX cofactors expression and regulation in the human ovary
  JOURNAL   Reprod Biol Endocrinol 6, 49 (2008)
   PUBMED   18973687
  REMARK    Publication Status: Online-Only
REFERENCE   4  (bases 1 to 910)
  AUTHORS   Leroy P, Berto F, Bourget I and Rossi B.
  TITLE     Down-regulation of Hox A7 is required for cell adhesion and
            migration on fibronectin during early HL-60 monocytic
            differentiation
  JOURNAL   J Leukoc Biol 75 (4), 680-688 (2004)
   PUBMED   14704364
REFERENCE   5  (bases 1 to 910)
  AUTHORS   La Celle PT and Polakowska RR.
  TITLE     Human homeobox HOXA7 regulates keratinocyte transglutaminase type 1
            and inhibits differentiation
  JOURNAL   J Biol Chem 276 (35), 32844-32853 (2001)
   PUBMED   11435435
REFERENCE   6  (bases 1 to 910)
  AUTHORS   Schnabel CA and Abate-Shen C.
  TITLE     Repression by HoxA7 is mediated by the homeodomain and the
            modulatory action of its N-terminal-arm residues
  JOURNAL   Mol Cell Biol 16 (6), 2678-2688 (1996)
   PUBMED   8649375
REFERENCE   7  (bases 1 to 910)
  AUTHORS   Pellerin I, Schnabel C, Catron KM and Abate C.
  TITLE     Hox proteins have different affinities for a consensus DNA site
            that correlate with the positions of their genes on the hox cluster
  JOURNAL   Mol Cell Biol 14 (7), 4532-4545 (1994)
   PUBMED   7911971
REFERENCE   8  (bases 1 to 910)
  AUTHORS   Gross MK and Gruss P.
  TITLE     Functional analysis of mouse Hoxa-7 in Saccharomyces cerevisiae:
            sequences outside the homeodomain base contact zone influence
            binding and activation
  JOURNAL   Mol Cell Biol 14 (1), 238-254 (1994)
   PUBMED   8264592
REFERENCE   9  (bases 1 to 910)
  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   10 (bases 1 to 910)
  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
            JACYVU010000142.1.
            On Oct 26, 2007 this sequence version replaced NM_001109233.1.
            
            Summary: mouse homolog is a homeobox transcription factor [RGD, Feb
            2006].
            
            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.
            
            Publication Note:  This RefSeq record includes a subset of the
            publications that are available for this gene. Please see the Gene
            record to access additional publications.
            
            ##Evidence-Data-START##
            Transcript exon combination :: SRR8487230.38995.1,
                                           SRR8487231.88312.1 [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMEA5760384, SAMEA5760386
                                           [ECO:0000348]
            ##Evidence-Data-END##
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-476               JACYVU010000142.1  4550554-4551029     c
            477-910             JACYVU010000142.1  4549130-4549563     c
FEATURES             Location/Qualifiers
     source          1..910
                     /organism="Rattus norvegicus"
                     /mol_type="mRNA"
                     /strain="BN"
                     /db_xref="taxon:10116"
                     /chromosome="4"
                     /map="4q24"
     gene            1..910
                     /gene="Hoxa7"
                     /gene_synonym="Hox1r5; Hoxa9"
                     /note="homeobox A7"
                     /db_xref="GeneID:500126"
                     /db_xref="RGD:1587253"
     exon            1..476
                     /gene="Hoxa7"
                     /gene_synonym="Hox1r5; Hoxa9"
                     /inference="alignment:Splign:2.1.0"
     misc_feature    65..67
                     /gene="Hoxa7"
                     /gene_synonym="Hox1r5; Hoxa9"
                     /note="upstream in-frame stop codon"
     CDS             101..790
                     /gene="Hoxa7"
                     /gene_synonym="Hox1r5; Hoxa9"
                     /note="Homeobox gene A7; hox-1.1; homeobox protein
                     Hox-A7-like; homeobox protein R5; homeobox protein
                     Hox-1.1; homeobox A9"
                     /codon_start=1
                     /product="homeobox protein Hox-A7"
                     /protein_id="NP_001102703.2"
                     /db_xref="GeneID:500126"
                     /db_xref="RGD:1587253"
                     /translation="
MSSSYYVNALFSKYTAGASLFQNAEPTSCSFAPNSQRSGYGPGAGAFASNVPGLYNVNSPLYQNPFASSYGLGADAYNLPCASYDQNIPGLCSDLAKGACDKADEGVLHGPAEASFRIYPWMRSSGPDRKRGRQTYTRYQTLELEKEFHFNRYLTRRRRIEIAHALCLTERQIKIWFQNRRMKWKKEHKDESQAPTAVPEDAVPSVSTAADKADEEEEEEEEEEEEEEE"
     misc_feature    order(488..502,506..508,557..559,575..577,614..616,
                     620..625,632..637,641..649,653..658)
                     /gene="Hoxa7"
                     /gene_synonym="Hox1r5; Hoxa9"
                     /note="DNA binding site [nucleotide binding]"
                     /db_xref="CDD:238039"
     misc_feature    order(494..496,503..505,623..625,632..637,644..646)
                     /gene="Hoxa7"
                     /gene_synonym="Hox1r5; Hoxa9"
                     /note="specific DNA base contacts [nucleotide binding];
                     other site"
                     /db_xref="CDD:238039"
     misc_feature    497..655
                     /gene="Hoxa7"
                     /gene_synonym="Hox1r5; Hoxa9"
                     /note="Homeobox domain; Region: Homeobox; pfam00046"
                     /db_xref="CDD:278475"
     STS             123..199
                     /gene="Hoxa7"
                     /gene_synonym="Hox1r5; Hoxa9"
                     /standard_name="Hoxa7"
                     /db_xref="UniSTS:536645"
     STS             164..462
                     /gene="Hoxa7"
                     /gene_synonym="Hox1r5; Hoxa9"
                     /standard_name="Hoxa7"
                     /db_xref="UniSTS:143372"
     exon            477..910
                     /gene="Hoxa7"
                     /gene_synonym="Hox1r5; Hoxa9"
                     /inference="alignment:Splign:2.1.0"
     STS             605..827
                     /gene="Hoxa7"
                     /gene_synonym="Hox1r5; Hoxa9"
                     /standard_name="Hoxa7"
                     /db_xref="UniSTS:143371"
     STS             642..827
                     /gene="Hoxa7"
                     /gene_synonym="Hox1r5; Hoxa9"
                     /standard_name="RH135228"
                     /db_xref="UniSTS:218505"
ORIGIN      
gggtttggtgtaaatctgggggtgtaatgttatcatatatcacgctacctcgtaaaaccgacactgaaagctgccggacaacaaatcacaggtcaaaattatgagttcttcgtattatgtgaacgcgctttttagcaaatatacggcgggggcttctctcttccaaaatgccgagccgacttcttgctcctttgcacccaactcgcagagaagcggctacgggccgggcgccggcgccttcgcctccaacgtgccgggcttatacaatgtcaacagccccctctatcagaaccccttcgcctccagctacggtctgggagccgacgcctacaacctgccctgcgcctcctacgaccaaaacatccccgggctctgcagtgacctcgccaaaggcgcctgcgacaaggcggacgagggcgtgctgcacggcccggccgaggccagtttccgcatctacccctggatgcgcagttcaggacccgataggaagcggggacgccagacctacactcgctaccagacgctggagctggagaaggaattccacttcaaccgctacctgacgcggcgccgccgcatcgagatcgctcacgcgctctgcctcaccgagcgccagatcaagatctggttccagaatcggcgcatgaagtggaagaaagagcataaagatgagagccaggctcccactgcagttccagaagacgcggtgccctccgtttccacggctgctgacaaggccgatgaggaagaggaggaggaagaggaggaggaagaggaggaagaggagtaaagggccaggcacaagaccctggctacacaggacagttggaaaagcgtctttaagagactcgttgattttagttacgaaaatggggggaaataaagtgtaaaaaaaaaaaaagaaaaaaag
//

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]