Hmces (5-hydroxymethylcytosine (hmC) binding, ES cell specific) - Rat Genome Database
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Gene: Hmces (5-hydroxymethylcytosine (hmC) binding, ES cell specific) Mus musculus
Analyze
Symbol: Hmces
Name: 5-hydroxymethylcytosine (hmC) binding, ES cell specific
RGD ID: 1558059
MGI Page MGI
Description: 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); INTERACTS WITH 1,2-dimethylhydrazine; etoposide; folic acid.
Type: protein-coding
RefSeq Status: PROVISIONAL
Also known as: 8430410A17Rik; abasic site processing protein HMCES; C85376; embryonic stem cell-specific 5-hydroxymethylcytosine-binding protein; ES cell-specific 5hmC-binding protein; hypothetical protein LOC232210; peptidase HMCES; putative endonuclease HMCES; putative peptidase SRAPD1; S; SRAP domain-containing protein 1; Srap1; UPF0361 protein C3orf37 homolog
RGD Orthologs
Human
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: GRCm38 - Mouse Genome Assembly GRCm38
Position:
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39687,890,889 - 87,913,603 (+)NCBIGRCm39mm39
GRCm39 Ensembl687,890,917 - 87,913,611 (+)Ensembl
GRCm38687,913,907 - 87,936,619 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl687,913,935 - 87,936,629 (+)EnsemblGRCm38mm10GRCm38
MGSCv37687,863,970 - 87,886,608 (+)NCBIGRCm37mm9NCBIm37
MGSCv36687,879,617 - 87,902,255 (+)NCBImm8
Celera689,851,062 - 89,873,700 (+)NCBICelera
Cytogenetic Map6D1NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

Phenotype Annotations     Click to see Annotation Detail View
References

Additional References at PubMed
PMID:10349636   PMID:10922068   PMID:11042159   PMID:11076861   PMID:12477932   PMID:12520002   PMID:14610273   PMID:15489334   PMID:15782199   PMID:16141072   PMID:16141073   PMID:17967808  
PMID:18799693   PMID:25471351   PMID:27097670   PMID:29020633   PMID:31806351   PMID:32325033  


Genomics

Comparative Map Data
Hmces
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39687,890,889 - 87,913,603 (+)NCBIGRCm39mm39
GRCm39 Ensembl687,890,917 - 87,913,611 (+)Ensembl
GRCm38687,913,907 - 87,936,619 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl687,913,935 - 87,936,629 (+)EnsemblGRCm38mm10GRCm38
MGSCv37687,863,970 - 87,886,608 (+)NCBIGRCm37mm9NCBIm37
MGSCv36687,879,617 - 87,902,255 (+)NCBImm8
Celera689,851,062 - 89,873,700 (+)NCBICelera
Cytogenetic Map6D1NCBI
HMCES
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl3129,278,828 - 129,306,186 (+)EnsemblGRCh38hg38GRCh38
GRCh383129,278,832 - 129,306,186 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh373128,997,675 - 129,025,029 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 363130,480,374 - 130,506,826 (+)NCBINCBI36hg18NCBI36
Celera3127,428,466 - 127,455,235 (+)NCBI
Cytogenetic Map3q21.3NCBI
HuRef3126,382,730 - 126,409,091 (+)NCBIHuRef
CHM1_13128,960,920 - 128,987,406 (+)NCBICHM1_1
Hmces
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.24120,392,812 - 120,415,616 (+)NCBI
Rnor_6.0 Ensembl4119,815,139 - 119,864,114 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.04119,841,088 - 119,864,115 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.04185,088,893 - 185,111,627 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.44122,136,275 - 122,154,853 (+)NCBIRGSC3.4rn4RGSC3.4
Celera4109,352,960 - 109,375,056 (+)NCBICelera
Cytogenetic Map4q34NCBI
Hmces
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495542913,616,647 - 13,661,389 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495542913,616,647 - 13,638,657 (+)NCBIChiLan1.0ChiLan1.0
HMCES
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.13133,694,676 - 133,721,519 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl3133,694,676 - 133,721,519 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v03126,339,758 - 126,367,166 (+)NCBIMhudiblu_PPA_v0panPan3
HMCES
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1 Ensembl202,808,689 - 2,830,462 (-)EnsemblCanFam3.1canFam3CanFam3.1
CanFam3.1202,808,687 - 2,831,123 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Hmces
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
SpeTri2.0NW_004936798261,566 - 284,480 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
HMCES
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1371,732,277 - 71,753,504 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11371,732,311 - 71,752,296 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21379,390,572 - 79,408,184 (-)NCBISscrofa10.2Sscrofa10.2susScr3
HMCES
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12251,759,776 - 51,785,902 (-)NCBI
ChlSab1.1 Ensembl2251,759,715 - 51,785,987 (-)Ensembl
Hmces
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_004624872344,249 - 353,577 (+)NCBI

Position Markers
AW546958  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm38687,936,211 - 87,936,296UniSTSGRCm38
MGSCv37687,886,205 - 87,886,290UniSTSGRCm37
Celera689,873,297 - 89,873,382UniSTS
Cytogenetic Map6D1UniSTS
Whitehead/MRC_RH6909.59UniSTS
RH127177  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm38687,936,376 - 87,936,594UniSTSGRCm38
MGSCv37687,886,370 - 87,886,588UniSTSGRCm37
Celera689,873,462 - 89,873,680UniSTS
Cytogenetic Map6D1UniSTS
Whitehead/MRC_RH6909.71UniSTS
RH136550  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm38687,912,205 - 87,912,399UniSTSGRCm38
MGSCv37687,862,199 - 87,862,393UniSTSGRCm37
Celera689,849,291 - 89,849,485UniSTS
Cytogenetic Map6D1UniSTS
cM Map638.0UniSTS
D18356  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm38687,936,320 - 87,936,499UniSTSGRCm38
MGSCv37687,886,314 - 87,886,493UniSTSGRCm37
Celera689,873,406 - 89,873,585UniSTS
Cytogenetic Map6D1UniSTS
Whitehead_YAC6 UniSTS
D6Ertd71e  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm38687,913,276 - 87,913,523UniSTSGRCm38
MGSCv37687,863,270 - 87,863,517UniSTSGRCm37
Celera689,850,362 - 89,850,609UniSTS
Cytogenetic Map6D1UniSTS
cM Map638.0UniSTS
RH125682  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm38687,912,335 - 87,912,505UniSTSGRCm38
MGSCv37687,862,329 - 87,862,499UniSTSGRCm37
Celera689,849,421 - 89,849,591UniSTS
Cytogenetic Map6D1UniSTS
cM Map638.0UniSTS


QTLs in Region (GRCm38)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
25440480Moaq2_mmodifier of alien QTL 2 (mouse)61117500000Mouse
26884414Bzwq12_mbi-zygomatic width QTL 12, 16 week (mouse)63400000139100000Mouse
4142126W3q3_mweight 3 weeks QTL 3 (mouse)Not determined450382396656149Mouse
4142361W10q11_mweight 10 weeks QTL 11 (mouse)Not determined450382396656149Mouse
4142271Egq8_mearly growth QTL 8 (mouse)Not determined450382396656149Mouse
4142232W6q4_mweight 6 weeks QTL 4 (mouse)Not determined450382396656149Mouse
1558984Cplaq9_mcircadian period of locomotor activity 9 (mouse)Not determined63866962592607450Mouse
10412157Fl1n_mfatty liver 1 in NSY (mouse)Not determined645314059128835032Mouse
4142259Tabw2_mtally ho associated body weight 2 (mouse)Not determined46935985136423692Mouse
25314319Histh6_mhistamine hypersensitivity 6 (mouse)648720000125360000Mouse
25314320Histh5_mhistamine hypersensitivity 5 (mouse)648720000148450000Mouse
1301962Eila2_methanol induced locomotor activity 2 (mouse)Not determined648726556125356785Mouse
1357683Igf1sl1_mIGF-1 serum levels 1 (mouse)Not determined652161713116155267Mouse
4141028Mclr_mmethylcholanthrene lymphoma resistance (mouse)Not determined5437342788379171Mouse
15039373Adip28_madiposity 28 (mouse)65630821190308211Mouse
15039375Bw41_mbody weight QTL 41 (mouse)65630821190308211Mouse
1558977Skmw10_mskeletal muscle weight 10 (mouse)Not determined65844758392447710Mouse
10043972Obq28_mobesity QTL 28 (mouse)Not determined65854043392540433Mouse
1301740Bwq2_mbody weight QTL 2 (mouse)Not determined66005768094057799Mouse
1301369Im4_mimmunoregulatory 4 (mouse)Not determined66348473897484905Mouse
1300650Bw18_mbody weight QTL 18 (mouse)Not determined666713869100714031Mouse
1301876Bits2_mbitterness sensitivity 2 (mouse)Not determined670425898104426034Mouse
1301813Skl3_mskeletal size (tail length) 3 (mouse)Not determined670425898104426034Mouse
1301034Egrm2_mearly growth rate (mouse)Not determined670425898104426034Mouse
1302020Bbaa20_mB.burgdorferi-associated arthritis 20 (mouse)Not determined67132262193464093Mouse
1300869Stheal5_msoft tissue heal 5 (mouse)Not determined671575060105575178Mouse
1300954Fcsa1_mfemoral cross-sectional area 1 (mouse)Not determined671981024105981170Mouse
1301521Pas1c_mpulmonary adenoma susceptibility 1c (mouse)Not determined671981024105981170Mouse
13506930Recrq9_mrecombination rate in male meiosis QTL 9 (mouse)673500000134700000Mouse
1301320Ots1_movarian teratoma susceptibility 1 (mouse)Not determined675447583104503555Mouse
1301571Arrd1_mage-related retinal degeneration 1 (mouse)Not determined67554435692607450Mouse
1300674Nidd3n_mnon-insulin-dependent diabetes mellitus 3 in NSY (mouse)Not determined67554435694225955Mouse
10412195Efw_mepididymal fat weight (mouse)Not determined67554435694225955Mouse
10043901Pfat5_mpredicted fat percentage 5 (mouse)Not determined675607306109607450Mouse
10412208Cypr4_mcytokine production 4 (mouse)Not determined675716503109716697Mouse
1357875Pfat2_mpredicted fat percentage 2 (mouse)Not determined676463949110464093Mouse
14697704Stsl4_mSalmonella typhimurium susceptibility locus 4 (mouse)67710000090000000Mouse
13824985Alh1_mamplitude of lateral head displacement 1 (mouse)67800000097000000Mouse
4141376Dbm1_mdiabetes modifier 1 (mouse)Not determined678629504121115387Mouse
14696731Pairq1_mP. aeruginosa infection resistance QTL 1 (mouse)681500000102200000Mouse
10043864T2dm4sa_mtype 2 diabetes mellitus 4 in SMXA RI mice (mouse)Not determined683713869147052561Mouse
11251720Ewc4_methanol withdrawal and consumption 4 (mouse)684122513118122513Mouse
1301687Mnic2_mmacronutrient intake (mouse)Not determined686806805113544602Mouse
1301744Hdlq11_mHDL QTL 11 (mouse)Not determined687503360121503555Mouse

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:619
Count of miRNA genes:302
Interacting mature miRNAs:338
Transcripts:ENSMUST00000032141, ENSMUST00000113606, ENSMUST00000124551, ENSMUST00000132651, ENSMUST00000148914
Prediction methods:Miranda, Rnahybrid, Targetscan
Result types:miRGate_prediction

The detailed report is available here: Full Report CSV TAB Printer

miRNA Target Status data imported from miRGate (http://mirgate.bioinfo.cnio.es/).
For more information about miRGate, see PMID:25858286 or access the full paper here.


Expression


Sequence


Reference Sequences
RefSeq Acc Id: ENSMUST00000032141   ⟹   ENSMUSP00000032141
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38.p6 Ensembl687,913,935 - 87,936,629 (+)Ensembl
RefSeq Acc Id: ENSMUST00000113606   ⟹   ENSMUSP00000109236
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38.p6 Ensembl687,914,306 - 87,936,629 (+)Ensembl
RefSeq Acc Id: ENSMUST00000124551
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38.p6 Ensembl687,917,924 - 87,933,425 (+)Ensembl
RefSeq Acc Id: ENSMUST00000132651
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38.p6 Ensembl687,913,958 - 87,915,003 (+)Ensembl
RefSeq Acc Id: ENSMUST00000148914
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38.p6 Ensembl687,932,993 - 87,936,529 (+)Ensembl
RefSeq Acc Id: ENSMUST00000204232   ⟹   ENSMUSP00000145504
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38.p6 Ensembl687,913,979 - 87,921,551 (+)Ensembl
RefSeq Acc Id: ENSMUST00000204614
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38.p6 Ensembl687,913,950 - 87,933,048 (+)Ensembl
RefSeq Acc Id: NM_173737   ⟹   NP_776098
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39687,890,958 - 87,913,596 (+)NCBI
GRCm38687,913,976 - 87,936,614 (+)NCBI
MGSCv37687,863,970 - 87,886,608 (+)RGD
Celera689,851,062 - 89,873,700 (+)RGD
cM Map6 ENTREZGENE
Sequence:
RefSeq Acc Id: XR_001785121
RefSeq Status:
Type: NON-CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39687,890,889 - 87,913,603 (+)NCBI
GRCm38687,913,907 - 87,936,619 (+)NCBI
Sequence:
RefSeq Acc Id: XR_377441
RefSeq Status:
Type: NON-CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39687,890,889 - 87,913,129 (+)NCBI
GRCm38687,913,907 - 87,936,147 (+)NCBI
Sequence:
Protein Sequences
Protein RefSeqs NP_776098 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAH24401 (Get FASTA)   NCBI Sequence Viewer  
  AAH64070 (Get FASTA)   NCBI Sequence Viewer  
  EDK99236 (Get FASTA)   NCBI Sequence Viewer  
  EDK99237 (Get FASTA)   NCBI Sequence Viewer  
  Q8R1M0 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: NP_776098   ⟸   NM_173737
- UniProtKB: Q8R1M0 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: ENSMUSP00000145504   ⟸   ENSMUST00000204232
RefSeq Acc Id: ENSMUSP00000032141   ⟸   ENSMUST00000032141
RefSeq Acc Id: ENSMUSP00000109236   ⟸   ENSMUST00000113606

Promoters
RGD ID:6839892
Promoter ID:MM_KWN:46793
Type:CpG-Island
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:3T3L1_Day0,   3T3L1_Day1,   3T3L1_Day2,   3T3L1_Day3,   3T3L1_Day4,   BoneMarrow_0Hour,   BoneMarrow_2Hour,   BoneMarrow_4Hour,   Brain,   ES_Cell,   Kidney,   Liver,   Lung,   MEF_B4,   MEF_B6,   Spleen
Transcripts:ENSMUST00000113606,   OTTMUST00000057280,   OTTMUST00000057282,   UC009CUI.1
Position:
Mouse AssemblyChrPosition (strand)Source
MGSCv36687,863,081 - 87,864,332 (+)MPROMDB
RGD ID:6890354
Promoter ID:EPDNEW_M8628
Type:initiation region
Name:Hmces_1
Description:Mus musculus 5-hydroxymethylcytosine binding, ES cell specific, mRNA.
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38687,913,967 - 87,914,027EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene MGI:1914053 AgrOrtholog
Ensembl Genes ENSMUSG00000030060 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Ensembl Protein ENSMUSP00000032141 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSMUSP00000109236 UniProtKB/Swiss-Prot
  ENSMUSP00000145504 UniProtKB/TrEMBL
Ensembl Transcript ENSMUST00000032141 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSMUST00000113606 UniProtKB/Swiss-Prot
  ENSMUST00000204232 UniProtKB/TrEMBL
Gene3D-CATH 3.90.1680.10 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
InterPro SRAP UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SRAP-like UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report mmu:232210 UniProtKB/Swiss-Prot
MGD MGI:1914053 ENTREZGENE
NCBI Gene 232210 ENTREZGENE
PANTHER PTHR13604 UniProtKB/Swiss-Prot
Pfam SRAP UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Hmces PhenoGen
Superfamily-SCOP SSF143081 UniProtKB/Swiss-Prot
UniProt A0A0N4SWG0_MOUSE UniProtKB/TrEMBL
  HMCES_MOUSE UniProtKB/Swiss-Prot, ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2013-10-22 Hmces  5-hydroxymethylcytosine (hmC) binding, ES cell specific  8430410A17Rik  RIKEN cDNA 8430410A17 gene  Symbol and/or name change 5135510 APPROVED