LOCUS       NM_001399238            3013 bp    mRNA    linear   ROD 28-MAR-2024
DEFINITION  Rattus norvegicus KH domain containing 4, pre-mRNA splicing factor
            (Khdc4), mRNA.
ACCESSION   NM_001399238 XM_342277
VERSION     NM_001399238.1
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 3013)
  AUTHORS   Loscher,M., Schosserer,M., Dausse,E., Lee,K., Ajuh,P.,
            Grillari-Voglauer,R., Lamond,A.I., Toulme,J.J. and Grillari,J.
  TITLE     Inhibition of pre-mRNA splicing by a synthetic
            Blom7alpha-interacting small RNA
  JOURNAL   PLoS One 7 (10), e47497 (2012)
   PUBMED   23144703
REFERENCE   2  (bases 1 to 3013)
  AUTHORS   Rapicavoli,N.A., Poth,E.M., Zhu,H. and Blackshaw,S.
  TITLE     The long noncoding RNA Six3OS acts in trans to regulate retinal
            development by modulating Six3 activity
  JOURNAL   Neural Dev 6, 32 (2011)
   PUBMED   21936910
  REMARK    Publication Status: Online-Only
REFERENCE   3  (bases 1 to 3013)
  AUTHORS   Grillari,J., Loscher,M., Denegri,M., Lee,K., Fortschegger,K.,
            Eisenhaber,F., Ajuh,P., Lamond,A.I., Katinger,H. and
            Grillari-Voglauer,R.
  TITLE     Blom7alpha is a novel heterogeneous nuclear ribonucleoprotein K
            homology domain protein involved in pre-mRNA splicing that
            interacts with SNEVPrp19-Pso4
  JOURNAL   J Biol Chem 284 (42), 29193-29204 (2009)
   PUBMED   19641227
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            JAXUCZ010000002.1.
            
            On Jan 5, 2022 this sequence version replaced XM_342277.8.
            
            ##Evidence-Data-START##
            Transcript exon combination :: SRR26360176.1420417.1,
                                           SRR26360172.2648427.1 [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMEA5760383, SAMEA5760386
                                           [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
            1-72                JAXUCZ010000002.1  176446947-176447018
            73-292              JAXUCZ010000002.1  176447478-176447697
            293-421             JAXUCZ010000002.1  176450686-176450814
            422-501             JAXUCZ010000002.1  176451454-176451533
            502-554             JAXUCZ010000002.1  176453901-176453953
            555-718             JAXUCZ010000002.1  176454263-176454426
            719-930             JAXUCZ010000002.1  176457213-176457424
            931-991             JAXUCZ010000002.1  176458520-176458580
            992-1049            JAXUCZ010000002.1  176459579-176459636
            1050-1303           JAXUCZ010000002.1  176459865-176460118
            1304-1471           JAXUCZ010000002.1  176471066-176471233
            1472-1584           JAXUCZ010000002.1  176472136-176472248
            1585-1676           JAXUCZ010000002.1  176473216-176473307
            1677-3013           JAXUCZ010000002.1  176474069-176475405
FEATURES             Location/Qualifiers
     source          1..3013
                     /organism="Rattus norvegicus"
                     /mol_type="mRNA"
                     /strain="BN"
                     /db_xref="taxon:10116"
                     /chromosome="2"
                     /map="2q34"
     gene            1..3013
                     /gene="Khdc4"
                     /gene_synonym="Blom7; RGD1565775"
                     /note="KH domain containing 4, pre-mRNA splicing factor"
                     /db_xref="GeneID:361980"
                     /db_xref="RGD:1565775"
     exon            1..72
                     /gene="Khdc4"
                     /gene_synonym="Blom7; RGD1565775"
                     /inference="alignment:Splign:2.1.0"
     CDS             35..1876
                     /gene="Khdc4"
                     /gene_synonym="Blom7; RGD1565775"
                     /note="nuclear ribonucleoprotein K homology domain
                     protein"
                     /codon_start=1
                     /product="KH homology domain-containing protein 4"
                     /protein_id="NP_001386167.1"
                     /db_xref="GeneID:361980"
                     /db_xref="RGD:1565775"
                     /translation="MSAGSATHPAAGGRRSKWDQPAPAPLLFLPPAAPGGEVTSSGGS
                     PGGASTAAPSGALDAAAAVAAKINAMLMAKGKLKPSQNAAEKLQAPGKSLTSNKSKDD
                     LVVAEVEINDVPLTCRNLLTRGQTQDEISRLSGAAVSTRGRFMTTEEKAKVGPGDRPL
                     YLHVQGQTRELVDRAVNRIKEIITNGVVKAATGTSPTFNGATVTVYHQPAPIAQLSPA
                     VNQKPSFQSGMHYVQDKLFVGLEHAVPTFNVKEKVEGPGCSYLQHIQIETGAKVFLRG
                     KGSGCIEPASGREAFEPMYIYISHPKPEGLAAAKKLCENLLQTVHAEYSRFVNQINTA
                     VPLPGYTQPSAISSIPPQPPYYPSNGYQSGYPVVPPPQQPVQPPYGVPSIVPPAVSLA
                     PGVLPALPTGVPPVPTQYPITQVQPPASTGQSPISAPFIPAAPVKTALPAGPQPQPQP
                     PLPAQPQSQKRRFTEELPDERESGLLGYQHGPIHMTNLGTGFSSQNEIEGAGSKPASS
                     SGKERERDRQLMPPPAFPVTGIKTESDERNGSGALTGSHDYPAKKMKTAEKGFGLVAY
                     AADSSDEEEEHGGHKNASSFPQGWSLGYQYPSSQPRAKQQMPFWMAP"
     exon            73..292
                     /gene="Khdc4"
                     /gene_synonym="Blom7; RGD1565775"
                     /inference="alignment:Splign:2.1.0"
     exon            293..421
                     /gene="Khdc4"
                     /gene_synonym="Blom7; RGD1565775"
                     /inference="alignment:Splign:2.1.0"
     exon            422..501
                     /gene="Khdc4"
                     /gene_synonym="Blom7; RGD1565775"
                     /inference="alignment:Splign:2.1.0"
     exon            502..554
                     /gene="Khdc4"
                     /gene_synonym="Blom7; RGD1565775"
                     /inference="alignment:Splign:2.1.0"
     exon            555..718
                     /gene="Khdc4"
                     /gene_synonym="Blom7; RGD1565775"
                     /inference="alignment:Splign:2.1.0"
     exon            719..930
                     /gene="Khdc4"
                     /gene_synonym="Blom7; RGD1565775"
                     /inference="alignment:Splign:2.1.0"
     exon            931..991
                     /gene="Khdc4"
                     /gene_synonym="Blom7; RGD1565775"
                     /inference="alignment:Splign:2.1.0"
     exon            992..1049
                     /gene="Khdc4"
                     /gene_synonym="Blom7; RGD1565775"
                     /inference="alignment:Splign:2.1.0"
     exon            1050..1303
                     /gene="Khdc4"
                     /gene_synonym="Blom7; RGD1565775"
                     /inference="alignment:Splign:2.1.0"
     exon            1304..1471
                     /gene="Khdc4"
                     /gene_synonym="Blom7; RGD1565775"
                     /inference="alignment:Splign:2.1.0"
     exon            1472..1584
                     /gene="Khdc4"
                     /gene_synonym="Blom7; RGD1565775"
                     /inference="alignment:Splign:2.1.0"
     exon            1585..1676
                     /gene="Khdc4"
                     /gene_synonym="Blom7; RGD1565775"
                     /inference="alignment:Splign:2.1.0"
     exon            1677..3013
                     /gene="Khdc4"
                     /gene_synonym="Blom7; RGD1565775"
                     /inference="alignment:Splign:2.1.0"
ORIGIN      
        1 gtagttggcg ggtggttgac tagagccggc cgccatgtcc gcagggagcg cgacacatcc
       61 tgccgctggc gggcgccgca gcaaatggga tcagccggct ccagcgccgc ttctcttcct
      121 gccgccagcg gccccaggtg gagaagtcac cagcagcggg ggaagcccgg ggggcgcctc
      181 caccgctgct ccttcaggag ccttggatgc cgccgccgcc gtggccgcca agatcaatgc
      241 tatgctcatg gccaaaggga agctgaaacc gtctcagaat gcggccgaga agcttcaggc
      301 tcctggcaaa agcctaacta gcaataaaag caaagatgat ctggtggtgg cagaagtaga
      361 aatcaatgac gtacctctga cgtgtaggaa cttgctgaca cgaggacaga cgcaggatga
      421 gatcagtcgg cttagtgggg ctgctgtgtc aactcgggga cggttcatga cgacggagga
      481 gaaggccaaa gtgggacctg gagatcgtcc attgtatctt catgttcagg gacagacacg
      541 ggagttagta gacagagctg taaaccgaat caaagaaata atcaccaatg gagtagtgaa
      601 ggctgccaca gggacaagtc caactttcaa tggtgcaaca gtcactgttt atcaccagcc
      661 agctcccatt gctcagctgt cgcctgctgt taaccagaag ccttccttcc agtcaggaat
      721 gcattatgtt caagataagc tatttgtggg cctagaacat gctgtgccca cttttaatgt
      781 taaggagaaa gtggaaggtc caggctgctc ttatttgcaa cacattcaga tcgaaactgg
      841 tgccaaagtc ttcctacgag gcaaaggctc cggctgcatt gagccagcct caggccgaga
      901 agcttttgaa cccatgtata tttatatcag tcatcccaaa cctgaaggcc tggctgctgc
      961 caagaagctc tgcgagaatc tcttacaaac agttcatgct gagtattcta gatttgtgaa
     1021 tcaaataaat actgctgtac cattaccagg ctatacacaa ccctctgcta taagtagtat
     1081 ccctcctcaa ccaccatatt atccatccaa tggctatcag tctggttacc ctgttgttcc
     1141 ccctcctcag cagccagttc agcctccgta tggagtacca agcatagtgc caccagctgt
     1201 ttcattggca ccaggagtct tgccagcatt acctactgga gtcccacctg tgccaacaca
     1261 gtatccgata acacaagtgc aacctccagc tagcactgga cagagcccga taagtgctcc
     1321 ttttattcct gctgctcctg tcaaaactgc cttgcctgct ggccctcagc cccagcccca
     1381 gcccccactc ccagctcagc cacaatcaca gaagaggcga ttcacagagg agcttcctga
     1441 tgaacgggaa tctggactgc ttggatacca gcatggaccc attcatatga ctaatttagg
     1501 tacaggcttc tccagtcaga atgagataga aggcgcagga tcgaagccgg caagttcctc
     1561 aggcaaagag cgagagaggg acaggcagtt gatgcctcca ccagcctttc cagtgactgg
     1621 aataaaaact gagtctgatg aaaggaatgg gtctggggcc ttaaccggaa gccatgatta
     1681 tccagccaag aagatgaaaa cagcagagaa gggatttggc ttagtagctt acgctgcaga
     1741 ctcctctgat gaagaggaag aacatggagg tcataaaaat gcaagtagct ttccacaggg
     1801 ctggagtttg ggctatcagt acccttcgtc acagccacga gctaagcagc agatgccgtt
     1861 ctggatggcc ccataggaaa tagtggacag agctctgaca ctcggtgact cttcttagca
     1921 ataatgcatg cacttgatta aacaagactc tggaacctgt tctgggggcc atcttggacc
     1981 ttcgaagaca ttagggatgc agtgtcccct gtcataaagg gatgccattc tttttaaaac
     2041 cctgtttctg cagtggcata acatctgtta aaattcactt agaatcacaa atttgcatca
     2101 agctttttaa aagttgacga aatgtgcttg tccagtgaaa tatcaggaca gagtcattgc
     2161 tacatatgtt tgacctggtc tagccttttc caaatgaata gcctcaactc tgttgtaaag
     2221 aaagttttat ttgtatttta ctactattgg gtcaattttg ataactggtt ataaacaaag
     2281 ccttactatt tattagtggg aaatggttta aagacccttc cttccatgct tacatgtaat
     2341 tctaagagct cctcatccct ctttccattt ggattctttg tttggaaaat gctgttttac
     2401 taatttagaa tggtcaacta caactggatc ctcaatagga aaatggagtt atttttgcat
     2461 tgtttcaata ccgggatgat ccaaagctgg cacctttagg cacacttgtt tcagatagcc
     2521 attgctgttg gcactgccct tccaacctcc ctgttttcac gtttcaaaga aaacgtgatg
     2581 gaaagctggt cagagctcat cacacaaatg aaatactcat ttgtctcaga actggtcgca
     2641 gcgagaagag agatgtgatg ctaccaatag gacggtgact ctgactggaa ttgcaacttg
     2701 tccttttttt cttggcattg tgacttttgc caaaagaact tttttgtatc aaatattgat
     2761 gtgtggaagt gaaggaatcg gtggctgagc caggagtgtc tgagatactg actgtcattt
     2821 ttgcacattt ttgaatactt tgcaggttgg ctttgtacaa actctggttt cctgtatgtt
     2881 gtaaataatt agaccataat ttcattataa ataaatgtat aaagattctg cttgtcattt
     2941 ttctttttct tccctggccc attcataaca ctaatatcaa taaactcttt ttaattattt
     3001 attccttttt aaa
//
