Cenph (centromere protein H) - Rat Genome Database

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Gene: Cenph (centromere protein H) Rattus norvegicus
Analyze
Symbol: Cenph
Name: centromere protein H
RGD ID: 1583506
Description: Predicted to enable kinetochore binding activity. Predicted to be involved in chromosome segregation and mitotic spindle organization. Predicted to be located in chromosome; nucleolus; and nucleoplasm. Predicted to be active in kinetochore and nucleus. Orthologous to human CENPH (centromere protein H); INTERACTS WITH 1-naphthyl isothiocyanate; 2,3,7,8-tetrachlorodibenzodioxine; Cuprizon.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: centromere autoantigen H; LOC681185; similar to centromere autoantigen H
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2231,894,253 - 31,910,182 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl231,894,667 - 31,910,154 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx239,030,649 - 39,044,388 (-)NCBIRnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.0237,071,857 - 37,085,611 (-)NCBIRnor_SHRSP
UTH_Rnor_WKY_Bbb_1.0231,930,017 - 31,943,687 (-)NCBIRnor_WKY
Rnor_6.0230,766,637 - 30,780,123 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl230,766,590 - 30,780,121 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0249,924,433 - 49,937,797 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4231,556,870 - 31,570,470 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera227,909,748 - 27,923,455 (-)NCBICelera
Cytogenetic Map2q12NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component
chromosome  (ISO)
kinetochore  (IBA,ISO)
nucleolus  (IEA,ISO)
nucleoplasm  (IEA,ISO)
nucleus  (IBA,ISO)

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
2. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:10488063   PMID:11092768   PMID:20212317  


Genomics

Comparative Map Data
Cenph
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2231,894,253 - 31,910,182 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl231,894,667 - 31,910,154 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx239,030,649 - 39,044,388 (-)NCBIRnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.0237,071,857 - 37,085,611 (-)NCBIRnor_SHRSP
UTH_Rnor_WKY_Bbb_1.0231,930,017 - 31,943,687 (-)NCBIRnor_WKY
Rnor_6.0230,766,637 - 30,780,123 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl230,766,590 - 30,780,121 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0249,924,433 - 49,937,797 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4231,556,870 - 31,570,470 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera227,909,748 - 27,923,455 (-)NCBICelera
Cytogenetic Map2q12NCBI
CENPH
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38569,189,583 - 69,210,357 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p13 Ensembl569,189,574 - 69,210,357 (+)EnsemblGRCh38hg38GRCh38
GRCh37568,485,410 - 68,506,184 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36568,521,131 - 68,541,940 (+)NCBINCBI36Build 36hg18NCBI36
Build 34568,521,130 - 68,541,939NCBI
Celera565,484,639 - 65,505,450 (+)NCBICelera
Cytogenetic Map5q13.2NCBI
HuRef565,440,795 - 65,462,162 (+)NCBIHuRef
CHM1_1568,485,097 - 68,505,926 (+)NCBICHM1_1
T2T-CHM13v2.0570,012,189 - 70,032,958 (+)NCBIT2T-CHM13v2.0
Cenph
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm3913100,896,182 - 100,912,415 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl13100,896,182 - 100,912,407 (-)EnsemblGRCm39 Ensembl
GRCm3813100,759,674 - 100,775,903 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl13100,759,674 - 100,775,899 (-)EnsemblGRCm38mm10GRCm38
MGSCv3713101,529,641 - 101,545,854 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv3613101,859,943 - 101,876,156 (-)NCBIMGSCv36mm8
Celera13104,368,435 - 104,384,734 (-)NCBICelera
Cytogenetic Map13D1NCBI
cM Map1353.23NCBI
Cenph
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0NW_004955446131,703 - 135,873 (-)NCBIChiLan1.0ChiLan1.0
CENPH
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.1546,362,206 - 46,383,139 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl546,362,206 - 46,383,139 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v0544,793,303 - 44,814,297 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
CENPH
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1254,267,782 - 54,299,083 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl254,267,826 - 54,298,869 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha251,234,652 - 51,265,378 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0254,778,640 - 54,809,758 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl254,778,655 - 54,809,776 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1251,837,932 - 51,868,808 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0252,612,919 - 52,643,856 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0253,500,515 - 53,531,697 (+)NCBIUU_Cfam_GSD_1.0
Cenph
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024407213191,442,659 - 191,459,781 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_004936480379,183 - 396,167 (-)EnsemblSpeTri2.0
SpeTri2.0NW_004936480379,172 - 396,167 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CENPH
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1647,353,324 - 47,378,745 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11647,353,319 - 47,378,746 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21651,246,717 - 51,272,149 (+)NCBISscrofa10.2Sscrofa10.2susScr3
CENPH
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1465,283,804 - 65,302,253 (+)NCBIChlSab1.1ChlSab1.1chlSab2
Vero_WHO_p1.0NW_02366604914,013,932 - 14,035,067 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Cenph
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462490570,373 - 97,343 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462490571,005 - 97,343 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Cenph
321 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:165
Count of miRNA genes:124
Interacting mature miRNAs:126
Transcripts:ENSRNOT00000025129, ENSRNOT00000072938
Prediction methods:Microtar, 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.


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
631682Bp115Blood pressure QTL 1154.30.0001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2137410502Rat
738010Lnnr3Liver neoplastic nodule remodeling QTL 32.94liver integrity trait (VT:0010547)liver remodeling tumorous lesion number (CMO:0001461)2141244106Rat
61355Bp36Blood pressure QTL 362.9blood pressure trait (VT:0000183)systolic blood pressure (CMO:0000004)25873687102844969Rat
1600379Mcs18Mammary carcinoma susceptibility QTL 182.6mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)2788777242804738Rat
738012Anxrr3Anxiety related response QTL 33.8exploratory behavior trait (VT:0010471)percentage of entries into a discrete space in an experimental apparatus (CMO:0000961)2902351954023519Rat
10755430Coatc6Coat color QTL 60.02576coat/hair pigmentation trait (VT:0010463)pigmented ventral coat/hair area to total ventral coat/hair area ratio (CMO:0001812)21159110056591100Rat
1578664Bmd9Bone mineral QTL density 95femur mineral mass (VT:0010011)total volumetric bone mineral density (CMO:0001728)21185206249003364Rat
731184Mamtr4Mammary tumor resistance QTL 40.0003mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)21649174061491740Rat
1357990Ael1Aortic elastin QTL 13.10.00091aorta elastin amount (VT:0003905)aortic elastin21907682564076825Rat
731167Glom4Glomerulus QTL 42.40.0082kidney glomerulus morphology trait (VT:0005325)count of superficial glomeruli not directly contacting the kidney surface (CMO:0001002)22030467265304672Rat
2300168Bmd47Bone mineral density QTL 476.60.0001femur mineral mass (VT:0010011)bone mineral density (CMO:0001226)22066244865662448Rat
10402051Gdil2Gastrointestinal dilation QTL 2enteric ganglion morphology trait (VT:0001045)length of intestine affected by colonic aganglionosis to total length of colon ratio (CMO:0001836)22490385374786777Rat
1302794Stl27Serum triglyceride level QTL 274.40.0001blood triglyceride amount (VT:0002644)plasma triglyceride level (CMO:0000548)225413423143657569Rat
1358894Kidm24Kidney mass QTL 244.03kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)225413423157142209Rat
1358899Kidm23Kidney mass QTL 233.88kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)225413423157142209Rat
1358901Cm38Cardiac mass QTL 382heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)225413423157142209Rat
1358904Cm39Cardiac mass QTL 392.26heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)225413423157142209Rat
1358910Kidm27Kidney mass QTL 275.77kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)225413423157142209Rat
1358911Kidm28Kidney mass QTL 285.42kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)225413423157142209Rat
1358913Cm41Cardiac mass QTL 412.73heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)225413423203928301Rat
1358917Cm42Cardiac mass QTL 422.82heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)225413423203928301Rat
1358887Bw50Body weight QTL 502.39body mass (VT:0001259)body weight (CMO:0000012)225413652157142078Rat
1358908Bw49Body weight QTL 493.36body mass (VT:0001259)body weight (CMO:0000012)225413652157142078Rat
1354617Bp240Blood pressure QTL 2404arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)22691781781754745Rat
1354617Bp240Blood pressure QTL 2404arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)22691781781754745Rat
1354617Bp240Blood pressure QTL 2404arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)22691781781754745Rat
1354603Bp243Blood pressure QTL 2433.9arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)226917817127469484Rat
2290453Scl55Serum cholesterol level QTL 552.83blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)226917817136917119Rat
1331764Bp205Blood pressure QTL 2053.476arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)22699957143154682Rat
1643006Pain1Pain QTL 13.630.005mechanical nociception trait (VT:0002734)self mutilation severity score (CMO:0002145)22699957148268661Rat
9590095Sffal3Serum free fatty acids level QTL 36.780.001blood free fatty acid amount (VT:0001553)plasma free fatty acids level (CMO:0000546)22715716072157160Rat
1300160Hrtrt3Heart rate QTL 33.62heart pumping trait (VT:2000009)absolute change in heart rate (CMO:0000534)22997159351729300Rat
10755434Coatc7Coat color QTL 70.04794coat/hair pigmentation trait (VT:0010463)pigmented ventral coat/hair area to total ventral coat/hair area ratio (CMO:0001812)23064806575648065Rat

Markers in Region
RH135264  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2231,896,776 - 31,896,972 (+)MAPPERmRatBN7.2
Rnor_6.0230,766,721 - 30,766,916NCBIRnor6.0
Rnor_5.0249,924,517 - 49,924,712UniSTSRnor5.0
RGSC_v3.4231,556,954 - 31,557,149UniSTSRGSC3.4
Celera227,909,832 - 27,910,027UniSTS
RH 3.4 Map276.4UniSTS
Cytogenetic Map2q12UniSTS


Expression


RNA-SEQ Expression
High: > 1000 TPM value   Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM   Below Cutoff: < 0.5 TPM

alimentary part of gastrointestinal system circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system appendage
High
Medium 2 26 28 22 11 22 32 20 36
Low 1 17 20 10 8 10 2 2 31 14 5 11 2
Below cutoff 9 9 9 4 7 11 1 4

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000025129   ⟹   ENSRNOP00000025129
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl231,894,667 - 31,910,154 (-)Ensembl
Rnor_6.0 Ensembl230,766,590 - 30,780,121 (-)Ensembl
RefSeq Acc Id: XM_008760701   ⟹   XP_008758923
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2231,894,253 - 31,910,182 (-)NCBI
Rnor_6.0230,766,637 - 30,780,123 (-)NCBI
Sequence:
RefSeq Acc Id: XM_039103489   ⟹   XP_038959417
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2231,896,675 - 31,910,166 (-)NCBI
Protein Sequences
Protein RefSeqs NP_001386458 (Get FASTA)   NCBI Sequence Viewer  
  NP_001386461 (Get FASTA)   NCBI Sequence Viewer  
  XP_008758923 (Get FASTA)   NCBI Sequence Viewer  
  XP_038959417 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein EDM10215 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: XP_008758923   ⟸   XM_008760701
- Peptide Label: isoform X1
- UniProtKB: F1M389 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000025129   ⟸   ENSRNOT00000025129
RefSeq Acc Id: XP_038959417   ⟸   XM_039103489
- Peptide Label: isoform X2
Protein Domains
CENP-H

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-F1M389-F1-model_v2 AlphaFold F1M389 1-239 view protein structure

Transcriptome

eQTL   View at Phenogen
WGCNA   View at Phenogen
Tissue/Strain Expression   View at Phenogen

Promoters
RGD ID:13691117
Promoter ID:EPDNEW_R1636
Type:initiation region
Name:Cenph_1
Description:centromere protein H
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0230,780,135 - 30,780,195EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1583506 AgrOrtholog
BioCyc Gene G2FUF-54650 BioCyc
Ensembl Genes ENSRNOG00000018615 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000025129 ENTREZGENE
  ENSRNOP00000025129.7 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000025129 ENTREZGENE
  ENSRNOT00000025129.9 UniProtKB/TrEMBL
InterPro CENP-H UniProtKB/TrEMBL
  Centromere_CenpH UniProtKB/TrEMBL
KEGG Report rno:681185 UniProtKB/TrEMBL
NCBI Gene 681185 ENTREZGENE
PANTHER PTHR48122 UniProtKB/TrEMBL
Pfam CENP-H UniProtKB/TrEMBL
PhenoGen Cenph PhenoGen
UniProt F1M389 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2012-09-26 Cenph  centromere protein H  LOC681185  similar to centromere autoantigen H  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2006-11-19 LOC681185  similar to centromere autoantigen H      Symbol and Name status set to provisional 70820 PROVISIONAL