LOCUS       NM_001418193            1698 bp    mRNA    linear   ROD 14-FEB-2025
DEFINITION  Mus musculus 5-hydroxymethylcytosine (hmC) binding, ES cell
            specific (Hmces), transcript variant 2, mRNA.
ACCESSION   NM_001418193
VERSION     NM_001418193.1
KEYWORDS    RefSeq.
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 1698)
  AUTHORS   Wu,L., Shukla,V., Yadavalli,A.D., Dinesh,R.K., Xu,D., Rao,A. and
            Schatz,D.G.
  TITLE     HMCES protects immunoglobulin genes specifically from deletions
            during somatic hypermutation
  JOURNAL   Genes Dev 36 (7-8), 433-450 (2022)
   PUBMED   35450882
  REMARK    GeneRIF: HMCES protects immunoglobulin genes specifically from
            deletions during somatic hypermutation.
REFERENCE   2  (bases 1 to 1698)
  AUTHORS   Pan,Y., Zuo,H., Wen,F., Huang,F., Zhu,Y., Cao,L., Sha,Q.Q., Li,Y.,
            Zhang,H., Shi,M., Liang,C., Huang,J., Zou,L., Fan,H.Y., Ju,Z.,
            Wang,H. and Shen,L.
  TITLE     HMCES safeguards genome integrity and long-term self-renewal of
            hematopoietic stem cells during stress responses
  JOURNAL   Leukemia 36 (4), 1123-1131 (2022)
   PUBMED   35039639
REFERENCE   3  (bases 1 to 1698)
  AUTHORS   Shukla,V., Halabelian,L., Balagere,S., Samaniego-Castruita,D.,
            Feldman,D.E., Arrowsmith,C.H., Rao,A. and Aravind,L.
  TITLE     HMCES Functions in the Alternative End-Joining Pathway of the DNA
            DSB Repair during Class Switch Recombination in B Cells
  JOURNAL   Mol Cell 77 (2), 384-394 (2020)
   PUBMED   31806351
  REMARK    GeneRIF: Further evidence for a specialized role for HMCES in DNA
            repair.
            Erratum:[Mol Cell. 2020 Mar 5;77(5):1154. doi:
            10.1016/j.molcel.2020.02.008.. PMID: 32142687]
REFERENCE   4  (bases 1 to 1698)
  AUTHORS   Kweon,S.M., Zhu,B., Chen,Y., Aravind,L., Xu,S.Y. and Feldman,D.E.
  TITLE     Erasure of Tet-Oxidized 5-Methylcytosine by a SRAP Nuclease
  JOURNAL   Cell Rep 21 (2), 482-494 (2017)
   PUBMED   29020633
  REMARK    GeneRIF: Inactivation of murine Srap1 results in accumulation of
            5hmC in genomic DNA.  Srap1 deficient mice display embryonic
            sublethality and altered DNA methylation.
REFERENCE   5  (bases 1 to 1698)
  AUTHORS   Wang,H., Huang,N., Liu,Y., Cang,J. and Xue,Z.
  TITLE     Genomic distribution of 5-Hydroxymethylcytosine in mouse kidney and
            its relationship with gene expression
  JOURNAL   Ren Fail 38 (6), 982-988 (2016)
   PUBMED   27097670
  REMARK    GeneRIF: Correlation analyses showed that 5hmC enrichment in gene
            body is positively associated with gene expression level in mouse
            kidney. Moreover, ischemia reperfusion (IR) injury-associated genes
            (both up- and down-regulated genes during renal IR injury) in mouse
            kidney exhibit significantly higher 5hmC enrichment in their gene
            body regions when compared to those un-changed genes.
REFERENCE   6  (bases 1 to 1698)
  AUTHORS   Kraus,T.F., Guibourt,V. and Kretzschmar,H.A.
  TITLE     5-Hydroxymethylcytosine, the 'Sixth Base', during brain development
            and ageing
  JOURNAL   J Neural Transm (Vienna) 122 (7), 1035-1043 (2015)
   PUBMED   25471351
  REMARK    GeneRIF: The findings of this study described in this study
            emphasise the importance of 5hmC in brain development and ageing
            and will help to better understand the complexity and plasticity of
            the brain.
REFERENCE   7  (bases 1 to 1698)
  AUTHORS   Stryke,D., Kawamoto,M., Huang,C.C., Johns,S.J., King,L.A.,
            Harper,C.A., Meng,E.C., Lee,R.E., Yee,A., L'Italien,L.,
            Chuang,P.T., Young,S.G., Skarnes,W.C., Babbitt,P.C. and Ferrin,T.E.
  TITLE     BayGenomics: a resource of insertional mutations in mouse embryonic
            stem cells
  JOURNAL   Nucleic Acids Res 31 (1), 278-281 (2003)
   PUBMED   12520002
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            AC153872.2.
            
            ##Evidence-Data-START##
            Transcript exon combination :: AK018400.1, SRR7652917.66798.1
                                           [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMN00849374, SAMN00849375
                                           [ECO:0000348]
            ##Evidence-Data-END##
            COMPLETENESS: full length.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-531               AC153872.2         95536-96066
            532-675             AC153872.2         99210-99353
            676-801             AC153872.2         102897-103022
            802-980             AC153872.2         107003-107181
            981-1173            AC153872.2         114613-114805
            1174-1698           AC153872.2         117461-117985
FEATURES             Location/Qualifiers
     source          1..1698
                     /organism="Mus musculus"
                     /mol_type="mRNA"
                     /strain="C57BL/6"
                     /db_xref="taxon:10090"
                     /chromosome="6"
                     /map="6 39.13 cM"
     gene            1..1698
                     /gene="Hmces"
                     /gene_synonym="8430410A17Rik; Srap1"
                     /note="5-hydroxymethylcytosine (hmC) binding, ES cell
                     specific"
                     /db_xref="GeneID:232210"
                     /db_xref="MGI:MGI:1914053"
     exon            1..531
                     /gene="Hmces"
                     /gene_synonym="8430410A17Rik; Srap1"
                     /inference="alignment:Splign:2.1.0"
     CDS             349..1410
                     /gene="Hmces"
                     /gene_synonym="8430410A17Rik; Srap1"
                     /note="isoform a is encoded by transcript variant 2;
                     UPF0361 protein C3orf37 homolog; putative peptidase
                     SRAPD1; SRAP domain-containing protein 1; ES cell-specific
                     5hmC-binding protein; embryonic stem cell-specific
                     5-hydroxymethylcytosine-binding protein; peptidase HMCES;
                     putative endonuclease HMCES; abasic site processing
                     protein HMCES"
                     /codon_start=1
                     /product="abasic site processing protein HMCES isoform a"
                     /protein_id="NP_001405122.1"
                     /db_xref="GeneID:232210"
                     /db_xref="MGI:MGI:1914053"
                     /translation="MCGRTSCHLPREVLTRACAYQDRQGRRRLPQWRDPDKYCPSYNK
                     SPQSSSPVLLSRLHFEKDADSSDRIIIPMRWGLVPSWFKESDPSKLQFNTTNCRSDTI
                     MEKQSFKVPLGKGRRCVVLADGFYEWQRCQGTNQRQPYFIYFPQIKTEKSGGNDASDS
                     SDNKEKVWDNWRLLTMAGIFDCWEAPGGECLYSYSIITVDSCRGLSDIHSRMPAILDG
                     EEAVSKWLDFGEVATQEALKLIHPIDNITFHPVSPVVNNSRNNTPECLAPADLLVKKE
                     PKANGSSQRMMQWLATKSPKKEVPDSPKKDASGLPQWSSQFLQKSPLPAKRGATSSFL
                     DRWLKQEKEDEPMAKKPNS"
     exon            532..675
                     /gene="Hmces"
                     /gene_synonym="8430410A17Rik; Srap1"
                     /inference="alignment:Splign:2.1.0"
     exon            676..801
                     /gene="Hmces"
                     /gene_synonym="8430410A17Rik; Srap1"
                     /inference="alignment:Splign:2.1.0"
     exon            802..980
                     /gene="Hmces"
                     /gene_synonym="8430410A17Rik; Srap1"
                     /inference="alignment:Splign:2.1.0"
     exon            981..1173
                     /gene="Hmces"
                     /gene_synonym="8430410A17Rik; Srap1"
                     /inference="alignment:Splign:2.1.0"
     exon            1174..1698
                     /gene="Hmces"
                     /gene_synonym="8430410A17Rik; Srap1"
                     /inference="alignment:Splign:2.1.0"
     regulatory      1679..1684
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Hmces"
                     /gene_synonym="8430410A17Rik; Srap1"
                     /note="hexamer: AATAAA"
     polyA_site      1698
                     /gene="Hmces"
                     /gene_synonym="8430410A17Rik; Srap1"
                     /note="major polyA site"
ORIGIN      
        1 gttccgagct ggagccttgg cgccgacaag gccccgcccg ggacctgagc gtgtccccgc
       61 ggggcggtag tgcggtggcc gcggcccgcg agtgtcgctg gcgtcaaagc cgagcgctct
      121 cacctttccc tgctgcgtcc gtgggaaaca acctgggagg agcggctttc tttctcgccc
      181 gccacccgag ggcctgcttg gggactgtgg gccccgcagt ggccgggact ggctgaccta
      241 acggagcctc cgcggaagat gtggcttcgc ggggagattg gcgtgaccta gggaggagaa
      301 ccttagggtt ttgtgacttt ctctaggtct gagcggcagc gctgaagtat gtgcgggcga
      361 acgtcctgtc acttgcccag agaggttctc accagggcct gcgcctatca ggatcggcag
      421 ggccggcggc ggctcccgca gtggagggac cccgacaagt actgcccctc ctacaacaag
      481 agcccgcagt ccagcagccc cgtgctgctc tccagactgc actttgagaa ggatgcagac
      541 tcatcagatc ggataattat tcccatgcga tggggcttag tcccatcttg gttcaaagaa
      601 agtgatcctt ctaagctgca gttcaacact accaactgtc gtagtgatac cataatggag
      661 aagcagtcat tcaaggttcc tctggggaaa ggacggcggt gtgttgtttt agcagatgga
      721 ttctacgagt ggcagcggtg tcagggaaca aaccagaggc aaccatactt catctatttt
      781 cctcaaatca agacagagaa gtcaggtggg aacgatgctt cagacagctc tgacaacaag
      841 gaaaaggtct gggacaactg gaggctgctg acaatggcag ggatctttga ctgctgggaa
      901 gcgccagggg gagagtgcct gtattcctac agcatcatca ctgtggattc ctgcagaggt
      961 ttgagtgaca tccacagcag gatgcctgcc atactagatg gagaagaagc agtctccaaa
     1021 tggctcgact ttggtgaggt cgccactcag gaagctctga agctaatcca ccccatagac
     1081 aatatcacct tccatccagt ttctccagtg gtgaacaatt cccgaaacaa cactccggag
     1141 tgtctggcgc ctgctgactt gctggttaag aaggagccca aggcaaatgg cagcagtcaa
     1201 aggatgatgc agtggctggc tacaaagtca cccaaaaagg aagtccctga ctcacccaaa
     1261 aaggatgcat caggtctacc ccagtggtcc agccagtttc tccagaagag cccattgcct
     1321 gctaaaagag gtgctaccag cagcttcctg gatcgatggc tgaagcagga gaaggaggat
     1381 gagcccatgg ccaagaagcc taacagctag gctccatacc aggcctcagc ctgatacagc
     1441 attactgttg tcaccagttg actggaattg taacctttta cttgggaatg tggtggccca
     1501 atgtcagctg acctgaaaga acatggctac cgtgagacag ccctgtgggc cctgctaccc
     1561 ctcctatttc tgcctccctg ctgggagctt tcctgttccc tggtgttcca cgaaggaggc
     1621 tcttctcagt ctctgggctc tcctttagag ttaaggtctt aaaatgtatt ttgtcctaaa
     1681 taaactgcgt ttggtaaa
//
