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2024-03-28 18:26:37, GGRNA.v2 : RefSeq release 222 (Jan, 2024)

LOCUS       NM_013601               2162 bp    mRNA    linear   ROD 31-OCT-2023
DEFINITION  Mus musculus msh homeobox 2 (Msx2), mRNA.
ACCESSION   NM_013601
VERSION     NM_013601.2
KEYWORDS    RefSeq; RefSeq Select.
SOURCE      Mus musculus (house mouse)
  ORGANISM  Mus musculus
            Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi;
            Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha;
            Muroidea; Muridae; Murinae; Mus; Mus.
REFERENCE   1  (bases 1 to 2162)
  AUTHORS   Ruspita I, Das P, Miyoshi K, Noma T, Snead ML and Bei M.
  TITLE     Enam expression is regulated by Msx2
  JOURNAL   Dev Dyn 252 (10), 1292-1302 (2023)
   PUBMED   37191055
  REMARK    GeneRIF: Enam expression is regulated by Msx2.
REFERENCE   2  (bases 1 to 2162)
  AUTHORS   Wu B, Wu B, Benkaci S, Shi L, Lu P, Park T, Morrow BE, Wang Y and
            Zhou B.
  TITLE     Crk and Crkl Are Required in the Endocardial Lineage for Heart
            Valve Development
  JOURNAL   J Am Heart Assoc 12 (18), e029683 (2023)
   PUBMED   37702066
REFERENCE   3  (bases 1 to 2162)
  AUTHORS   Qu F, Li W, Xu J, Zhang R, Ke J, Ren X, Meng X, Qin L, Zhang J, Lu
            F, Zhou X, Luo X, Zhang Z, Wang M, Wu G, Pei D, Chen J, Cui G, Suo
            S and Peng G.
  TITLE     Three-dimensional molecular architecture of mouse organogenesis
  JOURNAL   Nat Commun 14 (1), 4599 (2023)
   PUBMED   37524711
  REMARK    Publication Status: Online-Only
REFERENCE   4  (bases 1 to 2162)
  AUTHORS   Liu H, Lu P, He S, Luo Y, Fang Y, Benkaci S, Wu B, Wang Y and Zhou
            B.
  TITLE     beta-Catenin regulates endocardial cushion growth by suppressing
            p21
  JOURNAL   Life Sci Alliance 6 (9), e202302163 (2023)
   PUBMED   37385754
  REMARK    Publication Status: Online-Only
REFERENCE   5  (bases 1 to 2162)
  AUTHORS   Redhead Y, Gibbins D, Lana-Elola E, Watson-Scales S, Dobson L,
            Krause M, Liu KJ, Fisher EMC, Green JBA and Tybulewicz VLJ.
  TITLE     Craniofacial dysmorphology in Down syndrome is caused by increased
            dosage of Dyrk1a and at least three other genes
  JOURNAL   Development 150 (8) (2023)
   PUBMED   37102702
REFERENCE   6  (bases 1 to 2162)
  AUTHORS   Scott,M.P.
  TITLE     Vertebrate homeobox gene nomenclature
  JOURNAL   Cell 71 (4), 551-553 (1992)
   PUBMED   1358459
REFERENCE   7  (bases 1 to 2162)
  AUTHORS   MacKenzie A, Ferguson MW and Sharpe PT.
  TITLE     Expression patterns of the homeobox gene, Hox-8, in the mouse
            embryo suggest a role in specifying tooth initiation and shape
  JOURNAL   Development 115 (2), 403-420 (1992)
   PUBMED   1358591
REFERENCE   8  (bases 1 to 2162)
  AUTHORS   Davidson DR, Crawley A, Hill RE and Tickle C.
  TITLE     Position-dependent expression of two related homeobox genes in
            developing vertebrate limbs
  JOURNAL   Nature 352 (6334), 429-431 (1991)
   PUBMED   1677742
REFERENCE   9  (bases 1 to 2162)
  AUTHORS   Monaghan AP, Davidson DR, Sime C, Graham E, Baldock R, Bhattacharya
            SS and Hill RE.
  TITLE     The Msh-like homeobox genes define domains in the developing
            vertebrate eye
  JOURNAL   Development 112 (4), 1053-1061 (1991)
   PUBMED   1682128
REFERENCE   10 (bases 1 to 2162)
  AUTHORS   Holland PW.
  TITLE     Cloning and evolutionary analysis of msh-like homeobox genes from
            mouse, zebrafish and ascidian
  JOURNAL   Gene 98 (2), 253-257 (1991)
   PUBMED   1673109
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            AK133846.1 and AV230604.1.
            
            On Sep 14, 2006 this sequence version replaced NM_013601.1.
            
            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 :: AK133846.1, X59252.1 [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMN00849374, SAMN00849375
                                           [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            RefSeq Select criteria :: based on single protein-coding transcript
            ##RefSeq-Attributes-END##
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-1478              AK133846.1         3-1480
            1479-2159           AK133846.1         1482-2162
            2160-2162           AV230604.1         160-162
FEATURES             Location/Qualifiers
     source          1..2162
                     /organism="Mus musculus"
                     /mol_type="mRNA"
                     /strain="C57BL/6"
                     /db_xref="taxon:10090"
                     /chromosome="13"
                     /map="13 27.84 cM"
     gene            1..2162
                     /gene="Msx2"
                     /gene_synonym="Hox-8; Hox8; Hox8.1"
                     /note="msh homeobox 2"
                     /db_xref="GeneID:17702"
                     /db_xref="MGI:MGI:97169"
     exon            1..449
                     /gene="Msx2"
                     /gene_synonym="Hox-8; Hox8; Hox8.1"
                     /inference="alignment:Splign:2.1.0"
     misc_feature    20..22
                     /gene="Msx2"
                     /gene_synonym="Hox-8; Hox8; Hox8.1"
                     /note="upstream in-frame stop codon"
     CDS             71..874
                     /gene="Msx2"
                     /gene_synonym="Hox-8; Hox8; Hox8.1"
                     /note="homeobox protein Hox-8-1; homeo box, msh-like 2;
                     homeobox, msh-like 2"
                     /codon_start=1
                     /product="homeobox protein MSX-2"
                     /protein_id="NP_038629.2"
                     /db_xref="CCDS:CCDS26522.1"
                     /db_xref="GeneID:17702"
                     /db_xref="MGI:MGI:97169"
                     /translation="
MASPTKGGDLFSSDEEGPAVLAGPGPGPGGAEGSAEERRVKVSSLPFSVEALMSDKKPPKESPAVPPDCASAGAVLRPLLLPGHGVRDAHSPGPLVKPFETASVKSENSEDGAPWIQEPGRYSPPPRHMSPTTCTLRKHKTNRKPRTPFTTSQLLALERKFRQKQYLSIAERAEFSSSLNLTETQVKIWFQNRRAKAKRLQEAELEKLKMAAKPMLPSGFSLPFPINSPLQAASIYGASYPFHRPVLPIPPVGLYATPVGYGMYHLS"
     misc_feature    71..196
                     /gene="Msx2"
                     /gene_synonym="Hox-8; Hox8; Hox8.1"
                     /note="propagated from UniProtKB/Swiss-Prot (Q03358.2);
                     Region: Disordered. /evidence=ECO:0000256|SAM:MobiDB-lite"
     misc_feature    380..466
                     /gene="Msx2"
                     /gene_synonym="Hox-8; Hox8; Hox8.1"
                     /note="propagated from UniProtKB/Swiss-Prot (Q03358.2);
                     Region: Disordered. /evidence=ECO:0000256|SAM:MobiDB-lite"
     misc_feature    order(497..511,515..517,566..568,584..586,623..625,
                     629..634,641..646,650..658,662..667)
                     /gene="Msx2"
                     /gene_synonym="Hox-8; Hox8; Hox8.1"
                     /note="DNA binding site [nucleotide binding]"
                     /db_xref="CDD:238039"
     misc_feature    503..664
                     /gene="Msx2"
                     /gene_synonym="Hox-8; Hox8; Hox8.1"
                     /note="Homeobox domain; Region: Homeobox; pfam00046"
                     /db_xref="CDD:425441"
     misc_feature    order(503..505,512..514,632..634,641..646,653..655)
                     /gene="Msx2"
                     /gene_synonym="Hox-8; Hox8; Hox8.1"
                     /note="specific DNA base contacts [nucleotide binding];
                     other site"
                     /db_xref="CDD:238039"
     exon            450..2162
                     /gene="Msx2"
                     /gene_synonym="Hox-8; Hox8; Hox8.1"
                     /inference="alignment:Splign:2.1.0"
     regulatory      2142..2147
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Msx2"
                     /gene_synonym="Hox-8; Hox8; Hox8.1"
                     /note="putative"
     polyA_site      2159
                     /gene="Msx2"
                     /gene_synonym="Hox-8; Hox8; Hox8.1"
                     /note="putative"
ORIGIN      
aaaagttggagtcttcgcttgagagttgccagcggagtcgcgcgccgacagctacgcggcgcagaaagtcatggcttctccgactaaaggcggtgacttgttttcgtcggatgaggagggccccgcggtactggccggcccgggtcccgggcctggaggagccgagggcagcgcagaggaacgcagggtcaaggtctccagcctgcccttcagcgtggaggcgctcatgtccgacaagaagccgcccaaggaatcgcccgcggtgccacccgactgcgcctcggctggcgctgtcctgcggccgctgctgctgccgggacacggcgtccgggacgctcacagtcccgggcctctcgtcaagcccttcgagaccgcctcggtcaagtcggaaaattccgaagacggagcaccgtggatacaggagcccggcagatactccccgccgcccagacatatgagccccaccacctgcaccctgaggaaacacaagaccaaccggaagccacgcacacccttcaccacatcccagcttctagccttggagcgcaagttccgccagaaacagtacctgtccatagcagagcgggccgagttctccagctctctgaaccttacagagacccaggtcaaaatctggttccagaaccgaagggctaaggcgaaaagactgcaagaggcggaactggaaaagctgaaaatggctgccaagcctatgctgccctcaggcttcagtctgcccttccctatcaactcacccctgcaagcagcatccatatacggcgcatcctaccccttccatagacctgtgctccccatcccgcctgttggactctatgccacgccggttggatatggcatgtaccatctatcctaaggaagaccagatggaccagactccaggatggatgtttgcataaaagcatccccctccctctccgagaaggtggtgccaactctgctcctgaatgcgagccttgcattgtcaccctaagcgacagggccacttgatacagagtgaatttgttatttaggtgagaggcactaagacctgttttgttttcataattttccaaatgccccctttcctctcacaaatattggctctgctagtttttatgtataaatatataataaaatataagactttttatatgccagatgtaaaaattcaagttattttaaaaggcaaaatttatatatacatttatccattttctttttttttctagatagcatcttcctaagatattgtgttaagtccatttgctacattttcttaaagggaaagagattaattgcagaatttgcaaggatggtggacttgcttatggaaaacatagcagaagtagacacattccatacaggatgtcacttcagacagattcttgcaagtgaagggggaggtgtaacgtgtttatttgcatttctgtgcacaagaaaaagaaatctcttgatgcacatttgatcctattttttttctctttttctccattccatattattaaatctttgttgttgttttaagatcgatgaaaagaggatgagaataactctgagagttactcagggtaaagtagaaaataggaaactccatgtcaggtccctggagtgagagggggttagaaggtgaaatattgtttgtaagaattgatttctatgaaatgctatctacatcagtcctcacacggtacagaggtgattggaagaggacatggtaaatctcttcttaaaaatgagtgtcttataactgtggcctatattttaaatattcttcaacagtccatagaatgaggaaggaaaacatgccttctctctctctctctctctctctctctctctctctctctctctctctagctctctctgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtactttgtgtgctaaacttcttagggaaatttatatactctaacgtgttgggcagatggagaagccatgtgcttgagttgctggagatggcgttgtcagtcagcacctgggtgtctcaccttcctgtccatctcttcccccagtatatttttatcccgttgaatgggtatcttgtataattttatatattttattgaagagttatttcttatctcttactctgaattaaattaaaatattttattgcagt
//

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]