LOCUS       NM_028814               2977 bp    mRNA    linear   ROD 02-JUN-2024
DEFINITION  Mus musculus KH domain containing 4, pre-mRNA splicing factor
            (Khdc4), transcript variant 1, mRNA.
ACCESSION   NM_028814
VERSION     NM_028814.5
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 2977)
  AUTHORS   Crisci,A., Raleff,F., Bagdiul,I., Raabe,M., Urlaub,H., Rain,J.C.
            and Kramer,A.
  TITLE     Mammalian splicing factor SF1 interacts with SURP domains of U2
            snRNP-associated proteins
  JOURNAL   Nucleic Acids Res 43 (21), 10456-10473 (2015)
   PUBMED   26420826
REFERENCE   2  (bases 1 to 2977)
  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 2977)
  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
REFERENCE   4  (bases 1 to 2977)
  AUTHORS   Okazaki,N., F-Kikuno,R., Ohara,R., Inamoto,S., Koseki,H.,
            Hiraoka,S., Saga,Y., Seino,S., Nishimura,M., Kaisho,T., Hoshino,K.,
            Kitamura,H., Nagase,T., Ohara,O. and Koga,H.
  TITLE     Prediction of the coding sequences of mouse homologues of KIAA
            gene: IV. The complete nucleotide sequences of 500 mouse
            KIAA-homologous cDNAs identified by screening of terminal sequences
            of cDNA clones randomly sampled from size-fractionated libraries
  JOURNAL   DNA Res 11 (3), 205-218 (2004)
   PUBMED   15368895
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            AC134246.4.
            
            On Jan 5, 2022 this sequence version replaced NM_028814.4.
            
            ##Evidence-Data-START##
            Transcript exon combination :: BC006621.1, AK012969.1 [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMN00849374, SAMN00849375
                                           [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            RefSeq Select criteria :: based on conservation, expression
            ##RefSeq-Attributes-END##
            COMPLETENESS: complete on the 3' end.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-72                AC134246.4         90906-90977
            73-295              AC134246.4         91434-91656
            296-424             AC134246.4         94265-94393
            425-504             AC134246.4         94714-94793
            505-557             AC134246.4         98166-98218
            558-721             AC134246.4         98511-98674
            722-933             AC134246.4         101655-101866
            934-994             AC134246.4         103939-103999
            995-1052            AC134246.4         105041-105098
            1053-1306           AC134246.4         105351-105604
            1307-1468           AC134246.4         113870-114031
            1469-1581           AC134246.4         114920-115032
            1582-1673           AC134246.4         115851-115942
            1674-2977           AC134246.4         116720-118023
FEATURES             Location/Qualifiers
     source          1..2977
                     /organism="Mus musculus"
                     /mol_type="mRNA"
                     /strain="C57BL/6"
                     /db_xref="taxon:10090"
                     /chromosome="3"
                     /map="3 38.93 cM"
     gene            1..2977
                     /gene="Khdc4"
                     /gene_synonym="2810403A07Rik; A430106P18Rik; Blom7;
                     Kiaa0907"
                     /note="KH domain containing 4, pre-mRNA splicing factor"
                     /db_xref="GeneID:74200"
                     /db_xref="MGI:MGI:1921450"
     exon            1..72
                     /gene="Khdc4"
                     /gene_synonym="2810403A07Rik; A430106P18Rik; Blom7;
                     Kiaa0907"
                     /inference="alignment:Splign:2.1.0"
     exon            73..295
                     /gene="Khdc4"
                     /gene_synonym="2810403A07Rik; A430106P18Rik; Blom7;
                     Kiaa0907"
                     /inference="alignment:Splign:2.1.0"
     exon            296..424
                     /gene="Khdc4"
                     /gene_synonym="2810403A07Rik; A430106P18Rik; Blom7;
                     Kiaa0907"
                     /inference="alignment:Splign:2.1.0"
     exon            425..504
                     /gene="Khdc4"
                     /gene_synonym="2810403A07Rik; A430106P18Rik; Blom7;
                     Kiaa0907"
                     /inference="alignment:Splign:2.1.0"
     exon            505..557
                     /gene="Khdc4"
                     /gene_synonym="2810403A07Rik; A430106P18Rik; Blom7;
                     Kiaa0907"
                     /inference="alignment:Splign:2.1.0"
     exon            558..721
                     /gene="Khdc4"
                     /gene_synonym="2810403A07Rik; A430106P18Rik; Blom7;
                     Kiaa0907"
                     /inference="alignment:Splign:2.1.0"
     exon            722..933
                     /gene="Khdc4"
                     /gene_synonym="2810403A07Rik; A430106P18Rik; Blom7;
                     Kiaa0907"
                     /inference="alignment:Splign:2.1.0"
     exon            934..994
                     /gene="Khdc4"
                     /gene_synonym="2810403A07Rik; A430106P18Rik; Blom7;
                     Kiaa0907"
                     /inference="alignment:Splign:2.1.0"
     exon            995..1052
                     /gene="Khdc4"
                     /gene_synonym="2810403A07Rik; A430106P18Rik; Blom7;
                     Kiaa0907"
                     /inference="alignment:Splign:2.1.0"
     exon            1053..1306
                     /gene="Khdc4"
                     /gene_synonym="2810403A07Rik; A430106P18Rik; Blom7;
                     Kiaa0907"
                     /inference="alignment:Splign:2.1.0"
     exon            1307..1468
                     /gene="Khdc4"
                     /gene_synonym="2810403A07Rik; A430106P18Rik; Blom7;
                     Kiaa0907"
                     /inference="alignment:Splign:2.1.0"
     exon            1469..1581
                     /gene="Khdc4"
                     /gene_synonym="2810403A07Rik; A430106P18Rik; Blom7;
                     Kiaa0907"
                     /inference="alignment:Splign:2.1.0"
     exon            1582..1673
                     /gene="Khdc4"
                     /gene_synonym="2810403A07Rik; A430106P18Rik; Blom7;
                     Kiaa0907"
                     /inference="alignment:Splign:2.1.0"
     exon            1674..2977
                     /gene="Khdc4"
                     /gene_synonym="2810403A07Rik; A430106P18Rik; Blom7;
                     Kiaa0907"
                     /inference="alignment:Splign:2.1.0"
     regulatory      2880..2885
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Khdc4"
                     /gene_synonym="2810403A07Rik; A430106P18Rik; Blom7;
                     Kiaa0907"
                     /note="hexamer: AATAAA"
     polyA_site      2898
                     /gene="Khdc4"
                     /gene_synonym="2810403A07Rik; A430106P18Rik; Blom7;
                     Kiaa0907"
                     /note="major polyA site"
     regulatory      2948..2953
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Khdc4"
                     /gene_synonym="2810403A07Rik; A430106P18Rik; Blom7;
                     Kiaa0907"
                     /note="hexamer: AATAAA"
     polyA_site      2977
                     /gene="Khdc4"
                     /gene_synonym="2810403A07Rik; A430106P18Rik; Blom7;
                     Kiaa0907"
ORIGIN      
        1 gtagttggcg ggtggttgac tggagcaggc cgccatgtcc gcagggagcg cgacacatcc
       61 tgccgctggc gggcgccgca gcaaatggga tcagccagcg ccagctccgc ttctcttcct
      121 gccgccaacg gccccaggtg gagaagtcgc tggcagcggg gcgagccccg ggggcgccac
      181 caccgccgcc gctccttcag gagccttgga tgccgccgct gccgtggctg ccaagatcaa
      241 tgctatgctc atggccaaag ggaagctgaa accatctcag aatgcggccg agaagcttca
      301 ggcccctggc aaaagcctaa ctagcaataa aagcaaagat gacctggtgg tggctgaagt
      361 agaaatcaat gacgtgcctc tgacatgcag aaacctgctg acacgaggac agacacaaga
      421 tgagatcagt cggcttagtg gggctgctgt gtcaactcgg ggacggttca tgacgactga
      481 ggagaaggcc aaagtgggac ctggagaccg tccattgtat cttcatgttc agggacagac
      541 acgggaatta gtagacagag ctgtaaaccg aatcaaagaa ataatcacca atggagtggt
      601 gaaggctgcc acagggacaa gtccaacttt caatggtgca acagtcactg tctatcacca
      661 gccagctccc attgctcagt tatcacctgc tattaaccag aagccttcct tccagtccgg
      721 aatgcattat gttcaagata aactatttgt gggtctagaa catgcggtgc ccacttttaa
      781 tgttaaagag aaagtagaag gtccaggctg ctcttatttg caacacattc aaattgaaac
      841 tggtgccaaa gtctttctac gagggaaagg ctcaggctgc attgagccag cgtcaggccg
      901 agaggctttt gaacccatgt atatttatat cagtcatccc aaacctgaag gcctggctgc
      961 tgccaagaag ctctgcgaga atctcttaca aacagttcat gctgagtatt ctagatttgt
     1021 gaatcaaatt aatactgctg taccattacc aggctataca caaccctctg ctataagtag
     1081 tatccctcct caaccaccat attatccatc caatggctat cagtctggtt accctgttgt
     1141 tccccctcct cagcagccag ttcagcctcc ctacggagta ccaagcatag tgccaccagc
     1201 tgtttcattg gcacctggag tcttgccagc attacctact ggggtcccac ctgtgccaac
     1261 acagtatccg ataacacaag tgcaacctcc agccagcact ggacagagcc caataagtgc
     1321 tccttttatt cctgctgctc ctgtcaaaac tgccttgcct actggccccc agccccagcc
     1381 ccaactccca gctcagccac agtcacagaa gaggcgattc acagaggagc tgcctgatga
     1441 acgggactct ggactgcttg gataccagca tggacccatt catatgacta atttaggtac
     1501 aggcttctcc agtcagaatg agatagaagg cgcaggatcg aagccggcaa gttcctcagg
     1561 caaagagcga gagagggaca ggcagttgat gcctccacca gcctttccag tgactggaat
     1621 aaaaactgag tctgatgaaa ggaatgggtc tggggcctta gccggaagcc atgattatcc
     1681 agccaagaag atgaaaacgg cagagaaggg atttggctta gtagcttacg ctgcagactc
     1741 ctctgatgaa gaggaagaac atggaggtca taaaaatgca agtagctttc cacagggctg
     1801 gagtttgggc tatcagtatc cttcatcaca gccacgagct aagcagcaga tgccattttg
     1861 gatggcccca tagaaaatag tggacagagc tttgaccctc agtgactctt cttagcaata
     1921 atgcatgcac ttgattaaac aagactctgg gacctgttct gggggccatc ttggatcttc
     1981 gaagatgtta gggacacagt gtcccctgtc ataaagggac gccattcttt ttaaaaccct
     2041 atttctgcag tggcataaca tccgttaaaa ttcacttaga atcacaaatt tgcatcaagc
     2101 tttttaacag ttgatgaaat gtgcttgtcc agtgagatac caggacagag tcattgctac
     2161 atatgtttga cctgatctag ccttttccaa atgaatagcc tcaactctgt tgtaaagaaa
     2221 gttttatttg tattttacta ctattgggtc aattttgata actggttaca aacaaaaagc
     2281 cttactattt attagtggga aatggtttta agacccttcc ttccatactt acatgtaatt
     2341 ctaagagctc ctcatccctc tttccatttg gagtctttgt ttggaaaatg ctgttttact
     2401 aatttagaat ggtcaaatac aactggatcc tgaacaggaa aatgcagtta tttttgcatt
     2461 ctttctttac tgggatgatc caaagctggc acctttaggc acacttgttt cagatagcca
     2521 ttgctgttgg cactgccctt ctaagctccc ggtttccaac tgggtcaaag aaaacgcgaa
     2581 acactcatct gtctctctca gaactggctg cagcgagaag agggatgtgg tgccaccgac
     2641 aggacggtga ctgactggaa ttgcaacttg tccttttttc ttggcattgc gggttttgcc
     2701 aaaagaactt ttttgtatca aatattcatg tgtggaagtg aaggaattgg tggtgagcca
     2761 ggagcgtctg agatactgtc atttttgcac atttttgaat actttgcggg ctggctttgt
     2821 acaaacttat tctctggttt cttgtatgtt gtaaataatt agaccataat ttcattataa
     2881 ataaatgtat aaatattctg cttgtcattt ctctttttct tccctagcct gttcatacac
     2941 taatatcaat aaactcttca attatttatt tttttaa
//
