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Hmces 5-hydroxymethylcytosine (hmC) binding, ES cell specific [ Mus musculus (house mouse) ]

Gene ID: 232210, updated on 11-Apr-2024

Summary

Official Symbol
Hmcesprovided by MGI
Official Full Name
5-hydroxymethylcytosine (hmC) binding, ES cell specificprovided by MGI
Primary source
MGI:MGI:1914053
See related
Ensembl:ENSMUSG00000030060 AllianceGenome:MGI:1914053
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Mus musculus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
Also known as
Srap1; 8430410A17Rik
Summary
Enables single-stranded DNA binding activity. Involved in double-strand break repair via alternative nonhomologous end joining and positive regulation of isotype switching. Predicted to be located in replication fork. Is expressed in several structures, including adipose tissue; genitourinary system; gut; hemolymphoid system gland; and liver. Orthologous to human HMCES (5-hydroxymethylcytosine binding, ES cell specific). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Ubiquitous expression in limb E14.5 (RPKM 8.7), CNS E18 (RPKM 8.2) and 28 other tissues See more
Orthologs
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Genomic context

See Hmces in Genome Data Viewer
Location:
6 D1; 6 39.13 cM
Exon count:
10
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 6 NC_000072.7 (87890889..87913603)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 6 NC_000072.6 (87913907..87936619)

Chromosome 6 - NC_000072.7Genomic Context describing neighboring genes Neighboring gene cellular nucleic acid binding protein Neighboring gene STARR-seq mESC enhancer starr_16568 Neighboring gene STARR-positive B cell enhancer ABC_E2793 Neighboring gene coatomer protein complex, subunit gamma 1 Neighboring gene STARR-positive B cell enhancer ABC_E1704 Neighboring gene eukaryotic translation elongation factor 1 alpha 1 pseudogene Neighboring gene ribosomal protein S19, pseudogene 9 Neighboring gene H1.10 linker histone

Genomic regions, transcripts, and products

Expression

  • Project title: Mouse ENCODE transcriptome data
  • Description: RNA profiling data sets generated by the Mouse ENCODE project.
  • BioProject: PRJNA66167
  • Publication: PMID 25409824
  • Analysis date: n/a

Bibliography

Variation

Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Gene Ontology Provided by MGI

Function Evidence Code Pubs
enables DNA binding IEA
Inferred from Electronic Annotation
more info
 
enables DNA-(abasic site) binding ISO
Inferred from Sequence Orthology
more info
 
enables hydrolase activity IEA
Inferred from Electronic Annotation
more info
 
enables peptidase activity IEA
Inferred from Electronic Annotation
more info
 
enables protein-DNA covalent cross-linking activity ISO
Inferred from Sequence Orthology
more info
 
enables single-stranded DNA binding IDA
Inferred from Direct Assay
more info
PubMed 
enables single-stranded DNA binding ISO
Inferred from Sequence Orthology
more info
 
Component Evidence Code Pubs
located_in chromosome IEA
Inferred from Electronic Annotation
more info
 
is_active_in replication fork ISO
Inferred from Sequence Orthology
more info
 

General protein information

Preferred Names
abasic site processing protein HMCES
Names
ES cell-specific 5hmC-binding protein
SRAP domain-containing protein 1
UPF0361 protein C3orf37 homolog
embryonic stem cell-specific 5-hydroxymethylcytosine-binding protein
peptidase HMCES
putative endonuclease HMCES
putative peptidase SRAPD1

NCBI Reference Sequences (RefSeq)

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RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

mRNA and Protein(s)

  1. NM_001418193.1NP_001405122.1  abasic site processing protein HMCES isoform a

    Status: VALIDATED

    Source sequence(s)
    AC153872
    UniProtKB/Swiss-Prot
    Q8R1M0
    Related
    ENSMUSP00000109236.2, ENSMUST00000113606.2
  2. NM_001418194.1NP_001405123.1  abasic site processing protein HMCES isoform b

    Status: VALIDATED

    Source sequence(s)
    AC153872
  3. NM_001418195.1NP_001405124.1  abasic site processing protein HMCES isoform b

    Status: VALIDATED

    Source sequence(s)
    AC153872
  4. NM_001418196.1NP_001405125.1  abasic site processing protein HMCES isoform b

    Status: VALIDATED

    Source sequence(s)
    AC153872
  5. NM_001418197.1NP_001405126.1  abasic site processing protein HMCES isoform b

    Status: VALIDATED

    Source sequence(s)
    AC153872
  6. NM_001418198.1NP_001405127.1  abasic site processing protein HMCES isoform c

    Status: VALIDATED

    Source sequence(s)
    AC153872
  7. NM_001418199.1NP_001405128.1  abasic site processing protein HMCES isoform c

    Status: VALIDATED

    Source sequence(s)
    AC153872
  8. NM_173737.3NP_776098.1  abasic site processing protein HMCES isoform a

    See identical proteins and their annotated locations for NP_776098.1

    Status: VALIDATED

    Source sequence(s)
    AC153872
    Consensus CDS
    CCDS39551.1
    UniProtKB/Swiss-Prot
    Q8R1M0
    Related
    ENSMUSP00000032141.8, ENSMUST00000032141.14
    Conserved Domains (1) summary
    pfam02586
    Location:1258
    SRAP; SOS response associated peptidase (SRAP)

RNA

  1. NR_184690.1 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    AC153872

RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCm39 C57BL/6J

Genomic

  1. NC_000072.7 Reference GRCm39 C57BL/6J

    Range
    87890889..87913603
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

RNA

  1. XR_001785121.2 RNA Sequence

  2. XR_377441.3 RNA Sequence