LOCUS       NM_175407               4994 bp    mRNA    linear   ROD 04-JUN-2024
DEFINITION  Mus musculus sine oculis binding protein (Sobp), mRNA.
ACCESSION   NM_175407 XM_125599
VERSION     NM_175407.3
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 4994)
  AUTHORS   Sun,H. and Hunter,T.
  TITLE     Poly-small ubiquitin-like modifier (PolySUMO)-binding proteins
            identified through a string search
  JOURNAL   J Biol Chem 287 (50), 42071-42083 (2012)
   PUBMED   23086935
REFERENCE   2  (bases 1 to 4994)
  AUTHORS   Birk,E., Har-Zahav,A., Manzini,C.M., Pasmanik-Chor,M.,
            Kornreich,L., Walsh,C.A., Noben-Trauth,K., Albin,A., Simon,A.J.,
            Colleaux,L., Morad,Y., Rainshtein,L., Tischfield,D.J., Wang,P.,
            Magal,N., Maya,I., Shoshani,N., Rechavi,G., Gothelf,D., Maydan,G.,
            Shohat,M. and Basel-Vanagaite,L.
  TITLE     SOBP is mutated in syndromic and nonsyndromic intellectual
            disability and is highly expressed in the brain limbic system
  JOURNAL   Am J Hum Genet 87 (5), 694-700 (2010)
   PUBMED   21035105
  REMARK    GeneRIF: In situ RNA expression studies in postnatal mouse brain
            showed strong expression in the limbic system at the time interval
            of active synaptogenesis.
REFERENCE   3  (bases 1 to 4994)
  AUTHORS   Chen,Z., Montcouquiol,M., Calderon,R., Jenkins,N.A., Copeland,N.G.,
            Kelley,M.W. and Noben-Trauth,K.
  TITLE     Jxc1/Sobp, encoding a nuclear zinc finger protein, is critical for
            cochlear growth, cell fate, and patterning of the organ of corti
  JOURNAL   J Neurosci 28 (26), 6633-6641 (2008)
   PUBMED   18579736
  REMARK    GeneRIF: These data support a role for Jxc1 in controlling a
            critical step in cochlear growth, cell fate, and patterning of the
            organ of Corti.
REFERENCE   4  (bases 1 to 4994)
  AUTHORS   Calderon,A., Derr,A., Stagner,B.B., Johnson,K.R., Martin,G. and
            Noben-Trauth,K.
  TITLE     Cochlear developmental defect and background-dependent hearing
            thresholds in the Jackson circler (jc) mutant mouse
  JOURNAL   Hear Res 221 (1-2), 44-58 (2006)
   PUBMED   16962269
REFERENCE   5  (bases 1 to 4994)
  AUTHORS   Reiners,J., Nagel-Wolfrum,K., Jurgens,K., Marker,T. and Wolfrum,U.
  TITLE     Molecular basis of human Usher syndrome: deciphering the meshes of
            the Usher protein network provides insights into the
            pathomechanisms of the Usher disease
  JOURNAL   Exp Eye Res 83 (1), 97-119 (2006)
   PUBMED   16545802
  REMARK    Review article
REFERENCE   6  (bases 1 to 4994)
  AUTHORS   Jones,S.M., Johnson,K.R., Yu,H., Erway,L.C., Alagramam,K.N.,
            Pollak,N. and Jones,T.A.
  TITLE     A quantitative survey of gravity receptor function in mutant mouse
            strains
  JOURNAL   J Assoc Res Otolaryngol 6 (4), 297-310 (2005)
   PUBMED   16235133
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            BC059851.1, AC112265.5 and BY712464.1.
            
            On Nov 13, 2006 this sequence version replaced NM_175407.2.
            
            ##Evidence-Data-START##
            Transcript exon combination :: BC059851.1, DQ157775.1 [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMN01164131, SAMN01164136
                                           [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            RefSeq Select criteria :: based on conservation, expression,
                                      longest protein
            ##RefSeq-Attributes-END##
            COMPLETENESS: complete on the 3' end.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-4836              BC059851.1         1-4836
            4837-4972           AC112265.5         181891-182026
            4973-4994           BY712464.1         207-228
FEATURES             Location/Qualifiers
     source          1..4994
                     /organism="Mus musculus"
                     /mol_type="mRNA"
                     /strain="C57BL/6"
                     /db_xref="taxon:10090"
                     /chromosome="10"
                     /map="10 22.89 cM"
     gene            1..4994
                     /gene="Sobp"
                     /gene_synonym="2900009C16Rik; 5330439J01Rik; jc; JXC1"
                     /note="sine oculis binding protein"
                     /db_xref="GeneID:109205"
                     /db_xref="MGI:MGI:1924427"
     exon            1..555
                     /gene="Sobp"
                     /gene_synonym="2900009C16Rik; 5330439J01Rik; jc; JXC1"
                     /inference="alignment:Splign:2.1.0"
     CDS             460..3054
                     /gene="Sobp"
                     /gene_synonym="2900009C16Rik; 5330439J01Rik; jc; JXC1"
                     /note="jackson circler protein 1"
                     /codon_start=1
                     /product="sine oculis-binding protein homolog"
                     /protein_id="NP_780616.4"
                     /db_xref="CCDS:CCDS35890.1"
                     /db_xref="GeneID:109205"
                     /db_xref="MGI:MGI:1924427"
                     /translation="MAEMEKEGRPPENKRSRKPAHPVKREINEEMKNFAENTMNELLG
                     WYGYDKVELKDGEDIEFRSYTTDGESRQHISVLKENSLPKPKLPEDSVISSYNISTGY
                     SGLATGNGLSDSPAGSKDHGNVPIIVPLIPPPFIKPPAEDDVSNVQIMCAWCQKVGIK
                     RYSLSMGSEVKSFCSEKCFAACRRAYFKRNKARDEDGRAETFPQQHYAKETPRLAFKN
                     NCELLVCDWCKHIRHTKEYLDFGDGERRLQFCSAKCLNQYKMDIFYKETQANLPAGLC
                     STLHPHMESKAEGTGVQLLTPDSWNIPLTDARRKAPSPVTAAGQSQGPGPSSSTTVSP
                     SDTANCSVTKIPTPVPKSLPISETPSIPPVSVQPPASIGPPLGVPPRSPPMVMTNRGP
                     VPLPIFMEQQIIQQIRPPFIRGPPHHASNPNSPLSNPMLPGIGAPPGGPRNLGPTSSP
                     MHRPMLSPHIHPPSTPTMPGNPPGLLPPPPPGAPLPSLPFPPVSMMPNGPMPVPQMMN
                     FGLPSLAPLVPPPTLLVPYPVIVPLPVPIPIPIPIPHVNDSKPPNGFSSNGESFVPSA
                     PGDSSAAGGKAGGRSLSPRDSKQGSSKSADSPPGSSGQALSLAPAERGRGEVVDLTRR
                     AGSPAGAGGQPGFAGVLHGPQDGVIDLTVGHRARLHNVIHRALHAHVKAEREPGAAER
                     RTCGGCRDGHCSPPAAGDPGPGAPAGPEAAAACNVIVNGTRSAPAEAKGAEPPPEQPP
                     PPAPPKKLLSSEEPVVNELESVKENNCASNCHLDGEATKKLMGEEALAGGDKSDPNLN
                     NPADEDHAYALRMLPKTGCVIQPVPKPAEKAAMTPCVISSPMLSAGPEDLEPPLKRRC
                     LRIRNQNK"
     exon            556..694
                     /gene="Sobp"
                     /gene_synonym="2900009C16Rik; 5330439J01Rik; jc; JXC1"
                     /inference="alignment:Splign:2.1.0"
     exon            695..880
                     /gene="Sobp"
                     /gene_synonym="2900009C16Rik; 5330439J01Rik; jc; JXC1"
                     /inference="alignment:Splign:2.1.0"
     exon            881..1032
                     /gene="Sobp"
                     /gene_synonym="2900009C16Rik; 5330439J01Rik; jc; JXC1"
                     /inference="alignment:Splign:2.1.0"
     exon            1033..1128
                     /gene="Sobp"
                     /gene_synonym="2900009C16Rik; 5330439J01Rik; jc; JXC1"
                     /inference="alignment:Splign:2.1.0"
     exon            1129..3065
                     /gene="Sobp"
                     /gene_synonym="2900009C16Rik; 5330439J01Rik; jc; JXC1"
                     /inference="alignment:Splign:2.1.0"
     exon            3066..4980
                     /gene="Sobp"
                     /gene_synonym="2900009C16Rik; 5330439J01Rik; jc; JXC1"
                     /inference="alignment:Splign:2.1.0"
     regulatory      4374..4379
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Sobp"
                     /gene_synonym="2900009C16Rik; 5330439J01Rik; jc; JXC1"
                     /note="hexamer: AACAAA"
     polyA_site      4393
                     /gene="Sobp"
                     /gene_synonym="2900009C16Rik; 5330439J01Rik; jc; JXC1"
     regulatory      4959..4964
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Sobp"
                     /gene_synonym="2900009C16Rik; 5330439J01Rik; jc; JXC1"
                     /note="hexamer: AATAAA"
     polyA_site      4980
                     /gene="Sobp"
                     /gene_synonym="2900009C16Rik; 5330439J01Rik; jc; JXC1"
                     /note="major polyA site"
ORIGIN      
        1 gatccacgca cgcacgccca gagcagctgt ctccgccgtg gccggcgctc ctctcgccca
       61 tgcggacaga cagagctcag gaagatggct gacgactcct tcgggccccg aggatgcagc
      121 ccggcggcgg cgggagcggg agcggcggcg gcggcaccgg cagcggcggc agcaggagcg
      181 gcggcggcga cggtaggagc ggcggcggcg gcatccccga gactccccgg gctacccttc
      241 cccgtgacgg ccactgacgg tctccgccgc tagaagagac cccgctcctc cctcgcctgt
      301 tccaccccca cccccagccc cggacccgct agcaccgcta cctccgccag cgttgccacc
      361 atcagcacca cctccacctc cgccaccgcc accgccacca ccaccaccgc cggcggcggc
      421 agcagccatt tcatctccac agaaaccaga cacaaaaaca tggcagaaat ggagaaagaa
      481 gggagacctc cggaaaataa aagaagccgg aaacccgctc accctgtgaa gagggagatc
      541 aacgaggaga tgaagaactt tgcagaaaac accatgaatg aactccttgg ctggtatggc
      601 tatgataaag ttgaattaaa agacggtgaa gatattgaat tcagaagcta cactacggat
      661 ggagaaagcc ggcaacacat ttctgttctc aaagaaaatt ctttgccaaa accaaaatta
      721 ccggaggaca gtgttatttc atcttacaat ataagcacag gctactcagg ccttgccact
      781 gggaatggac tcagtgactc acctgctggg tcaaaggacc atggcaatgt gcctattatt
      841 gtccctttaa tcccaccacc tttcataaag ccgccagcag aagatgatgt gtcaaatgta
      901 caaataatgt gtgcctggtg ccagaaagtg gggatcaagc gctattccct gagtatggga
      961 agcgaggtga aaagcttctg cagcgagaaa tgctttgcgg cctgccggag agcctacttc
     1021 aaaagaaaca aggctagaga tgaagatgga cgtgctgaaa cgtttcccca gcagcactat
     1081 gctaaggaaa ctccaaggct tgccttcaag aataactgcg aactacttgt gtgtgactgg
     1141 tgtaaacaca taaggcacac aaaagaatac ctggattttg gggacgggga gagaaggctt
     1201 cagttctgca gtgcaaaatg tctcaatcaa tacaaaatgg acattttcta caaagagaca
     1261 caggccaatc ttccagccgg gctgtgcagc acactccacc ctcacatgga aagtaaagca
     1321 gaaggcaccg gggtgcagct gctcacgcca gactcttgga atatcccgct aacagatgct
     1381 cggaggaaag ccccttcccc cgtgactgca gctggccaaa gccagggccc cggcccatcc
     1441 tcgtccacca ccgtttctcc atctgacact gccaactgct ctgtcactaa aatccccacg
     1501 ccagtgccca agtccctccc catcagcgag actccgagca tccctcccgt ctcggtccag
     1561 ccacctgcta gcatcggacc tccactgggt gtcccgcctc gcagccctcc catggtgatg
     1621 accaaccgcg gcccagtgcc cctgcccatc ttcatggagc agcaaattat ccagcagatc
     1681 cgcccgccct tcatccgcgg accaccgcac cacgcctcca accccaatag tcccttgtcc
     1741 aaccccatgc tcccgggcat tggggccccg cccggaggcc ccaggaacct aggccccact
     1801 tccagcccca tgcaccggcc catgctatcg ccccacatcc accccccaag tacccctacc
     1861 atgcctggga accccccagg gctgctgccc ccgccgcccc cgggcgcgcc cttgcccagc
     1921 cttcccttcc ctccggttag catgatgcca aacggcccga tgccggttcc ccagatgatg
     1981 aacttcgggc tgccttcgct ggccccgctg gtgccgcccc ccacgctgct cgtgccgtac
     2041 ccagtgatag tgcccctgcc ggtgcccatc cctatcccta tccccattcc ccatgtgaac
     2101 gattccaagc cccccaacgg attttccagc aacggggaga gcttcgttcc gagcgctccg
     2161 ggcgactcat cggcggcggg aggcaaggct ggtggacgct ccctgtcccc gcgggactcc
     2221 aagcagggct cttccaagtc agccgactcg ccacccggaa gctccggcca ggctctgagc
     2281 ctggcgcccg cggagcgcgg tcgtggggag gtggtggacc tgacccggcg cgcaggcagc
     2341 cccgcgggtg cgggaggcca gccgggcttc gcgggcgtgt tgcacggccc gcaggacggc
     2401 gtcatcgacc tgaccgtggg ccaccgagcc cggctgcaca acgtgataca ccgtgcgctg
     2461 cacgctcacg tcaaggcgga gcgcgagccg ggagccgcgg agcgcaggac ctgcggcggc
     2521 tgcagggacg gccactgcag cccgcccgcc gccggcgacc ccggcccggg cgcccccgcg
     2581 ggccccgagg ccgctgccgc ctgcaacgtc atcgtgaacg gcacccgcag cgccccggcc
     2641 gaggccaagg gcgcggagcc cccgccggag cagccgccgc ccccagcccc tcccaaaaag
     2701 ctactgtcgt ccgaggagcc tgtggtgaac gagctggagt cggtcaagga gaacaactgc
     2761 gcttccaact gccacctgga cggggaagcg accaaaaaac tgatggggga ggaagccctg
     2821 gcggggggcg acaagtcgga cccgaacctc aataaccccg cggacgagga ccacgcctat
     2881 gctctgcgga tgctgcccaa gaccggctgc gtgatccagc ctgtgccaaa acccgcggag
     2941 aaggctgcca tgacgccgtg cgtcatctcc tcgcccatgc tcagcgctgg ccctgaggac
     3001 ctggagcctc cgctcaaaag gaggtgcctc cgaattagaa accagaataa gtaaaaaaat
     3061 aaaaggaaca ctcgctccca gggtacattg catggagaga gggcgtggag caaaccatgt
     3121 catgccatcc agtgacacca gctggtcagc tcaccacctc cctctggcta aaactcaagc
     3181 aaataacaca gcttccggtc attaaacatc ttggaggaag tggctctccc tggtggcctc
     3241 aaggccggag aagccagcag gtcttggacc catcaagccc gggcccacca ttcctgccca
     3301 cttcatctag agtctcccca gaagaactta gggatttcgc tggtttaaaa acaacaacaa
     3361 atagcaaaac aaaacaccaa cccgccacaa ggaccaatgt aggtatcctc gccccatctt
     3421 caaggctcta tggatgaggc cggaggatga cagggactgg aaaataagaa ccttttatat
     3481 atatatataa atctttttaa gaactgctgt ggtttgctgc tacgataaga attgtgattt
     3541 gcttttatgg gttaggaacg gaactgttca cgttttggtg gggagagacg ggatggtgct
     3601 ggagttctca atgcttccga ttcatctctg cccagcccac gatgcacttt taaatgaaga
     3661 ggtagaatat tttatcggct aatatacttt tcatgttatt ttttacaaag gccaccttta
     3721 tcctttttga tgccatattt tcagtgttac acttttatgg cttttaattt tcaatctgcc
     3781 agatgcagga agcagcatgg atagtttata ctgtggtttt acggagaccg aatgccaaga
     3841 gaactcggta aatgtttatt cttctcagct ttctcttgac atgcccctaa acagcgcccc
     3901 atttgggaac agagcaagag tgttgaactg aagaccaaaa tgccctcaag gtgtaatata
     3961 atctgagggg gaatatttgc tgggcgtcag gaaagactgg atgaaatttc aaccctgatg
     4021 gttttctgtg gtccaggaag tcagcgagac aatctctctc tgcgcagagt cctttcatga
     4081 taattagaat ggtatggaca agccgatgca aacaagagag aaagtgagaa agatcacccc
     4141 ggattctgtt tcactgtttg ctttctcctg tcatggttaa gagaaatgtg caattcgatc
     4201 ctcaatcagt gggtggagga taacagggta gatttacttg tgtgcacttg tacagttgta
     4261 gctgcgagtc cagaagtcct ctagaacatg tgtactggca ctgagtcgct gagacagtcg
     4321 tacagtgccc cagtctgatg agtacggaaa aaagaaaaga aaacaaacaa acaaacaaaa
     4381 aaatccaaaa aaagaagaaa acttaaaaaa aaaaaaacca agtcaaatca ccttgtgatt
     4441 cagtgtatct gtttactaac tcaaataaaa gcaattgttc cctctggagg ggtccaggtg
     4501 ccccgcccct ccaggccaca gagcctcagc aggagggtga cagacgcggc gggagggcag
     4561 gaggggcttt acggctgcac tggggccgcg gtccgcgtgt acagactgta tttctatcta
     4621 cgcctttgta cagtcgagtc aagctactgt tttacaggcg cttcttattt attagagccg
     4681 tgggagcttg gggggacaca cctggcgagc aagctcgctt tttaaacatg aaattggggg
     4741 gcagggggaa gggaggcggg agggaggggt tgctcatacg cccagggaga gatttataaa
     4801 agggaacgaa aaaaaacaaa aaaacaaaaa acaaaacaaa aaaaaaaact tccaacaaca
     4861 aactaaacca gcctacaacc caccaccaag ccacgccctg caggaagcag ccgcccctct
     4921 gggaactcct tttcctgctg cgtcggaatt gtcagacaaa taaatctctg agaaacatca
     4981 aaaaaaaaaa aaaa
//
