Zc3h10 (zinc finger CCCH type containing 10) - Rat Genome Database

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Gene: Zc3h10 (zinc finger CCCH type containing 10) Rattus norvegicus
Analyze
Symbol: Zc3h10
Name: zinc finger CCCH type containing 10
RGD ID: 1587846
Description: Predicted to enable miRNA binding activity. Predicted to be involved in negative regulation of miRNA processing and regulation of RNA splicing. Predicted to act upstream of with a positive effect on post-transcriptional regulation of gene expression. Predicted to be located in nucleus. Orthologous to human ZC3H10 (zinc finger CCCH-type containing 10); INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; bisphenol A; endosulfan.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: LOC685928; similar to zinc finger CCCH-type containing 10; zinc finger CCCH domain-containing protein 10
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Black Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr871,557,948 - 1,562,129 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl71,550,764 - 1,564,332 (-)EnsemblGRCr8
mRatBN7.27973,415 - 977,742 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl7972,855 - 979,349 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx73,735,524 - 3,739,618 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.075,611,514 - 5,615,609 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.075,909,127 - 5,913,224 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.072,968,428 - 2,972,521 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl72,968,435 - 2,972,521 (-)Ensemblrn6Rnor6.0
Rnor_5.072,942,056 - 2,946,149 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.471,835,469 - 1,839,562 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera7844,004 - 848,097 (-)NCBICelera
Cytogenetic Map7q11NCBI
JBrowse:




Disease Annotations     Click to see Annotation Detail View

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component
nucleus  (IEA,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. GOA pipeline RGD automated data pipeline
3. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:22658674   PMID:28431233  


Genomics

Comparative Map Data
Zc3h10
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr871,557,948 - 1,562,129 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl71,550,764 - 1,564,332 (-)EnsemblGRCr8
mRatBN7.27973,415 - 977,742 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl7972,855 - 979,349 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx73,735,524 - 3,739,618 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.075,611,514 - 5,615,609 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.075,909,127 - 5,913,224 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.072,968,428 - 2,972,521 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl72,968,435 - 2,972,521 (-)Ensemblrn6Rnor6.0
Rnor_5.072,942,056 - 2,946,149 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.471,835,469 - 1,839,562 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera7844,004 - 848,097 (-)NCBICelera
Cytogenetic Map7q11NCBI
ZC3H10
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381256,118,266 - 56,127,514 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1256,118,256 - 56,127,514 (+)Ensemblhg38GRCh38
GRCh371256,512,050 - 56,521,298 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361254,798,297 - 54,802,545 (+)NCBIBuild 36Build 36hg18NCBI36
Celera1256,164,175 - 56,168,423 (+)NCBICelera
Cytogenetic Map12q13.2NCBI
HuRef1253,551,163 - 53,555,411 (+)NCBIHuRef
CHM1_11256,479,395 - 56,483,643 (+)NCBICHM1_1
T2T-CHM13v2.01256,085,864 - 56,095,112 (+)NCBIT2T-CHM13v2.0
Zc3h10
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm3910128,379,429 - 128,383,877 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl10128,377,832 - 128,383,643 (-)EnsemblGRCm39 EnsemblGRCm39
GRCm3810128,543,560 - 128,548,008 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl10128,541,963 - 128,547,774 (-)Ensemblmm10GRCm38
MGSCv3710127,980,619 - 127,984,800 (-)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv3610127,946,512 - 127,950,693 (-)NCBIMGSCv36mm8
Celera10130,935,513 - 130,939,695 (-)NCBICelera
Cytogenetic Map10D3NCBI
cM Map1077.01NCBI
Zc3h10
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554583,720,709 - 3,725,196 (+)Ensembl
ChiLan1.0NW_0049554583,720,451 - 3,725,196 (+)NCBIChiLan1.0ChiLan1.0
ZC3H10
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21038,209,214 - 38,213,572 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11238,200,970 - 38,210,340 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01232,792,504 - 32,810,418 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11233,042,271 - 33,047,463 (-)NCBIPanPan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1233,043,757 - 33,045,061 (-)EnsemblpanPan2panpan1.1
ZC3H10
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.110439,163 - 445,587 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha10500,926 - 507,352 (+)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.010446,056 - 452,483 (+)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl10446,115 - 451,604 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.110423,513 - 429,939 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.010666,634 - 673,060 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.010790,644 - 797,072 (+)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
Zc3h10
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494558,335,968 - 58,341,768 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_004936646528,455 - 532,694 (+)EnsemblSpeTri2.0 Ensembl
SpeTri2.0NW_004936646528,455 - 534,267 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
ZC3H10
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl521,508,218 - 21,514,590 (+)EnsemblsusScr11Sscrofa11.1
Sscrofa11.1521,506,510 - 21,513,972 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2522,975,699 - 22,981,580 (+)NCBISscrofa10.2Sscrofa10.2susScr3
ZC3H10
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11152,057,090 - 52,062,998 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1152,061,065 - 52,062,369 (+)EnsemblChlSab1.1 EnsemblchlSab2Vervet-AGM
Vero_WHO_p1.0NW_023666037193,921,680 - 193,927,673 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Zc3h10
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462480211,886,878 - 11,891,491 (-)EnsemblHetGla_female_1.0 EnsemblhetGla2HetGla_female_1.0 Ensembl
HetGla 1.0NW_00462480211,886,029 - 11,891,640 (-)NCBIHetGla 1.0HetGla 1.0hetGla2
Zc3h10
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v11156,014,603 - 156,016,582 (-)NCBIRrattus_CSIRO_v1

Variants

.
Variants in Zc3h10
8 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:115
Count of miRNA genes:79
Interacting mature miRNAs:99
Transcripts:ENSRNOT00000061995
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.


QTLs in Region (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1300176Hrtrt10Heart rate QTL 103.19heart pumping trait (VT:2000009)heart rate (CMO:0000002)7123748937Rat
2298550Neuinf6Neuroinflammation QTL 63.3nervous system integrity trait (VT:0010566)spinal cord RT1-B protein level (CMO:0002132)7129716167Rat
2290372Gluco33Glucose level QTL 332.71blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)7131777942Rat
1300149Cm6Cardiac mass QTL 64.09heart mass (VT:0007028)heart left ventricle weight to body weight ratio (CMO:0000530)71104117804Rat
634336Anxrr17Anxiety related response QTL 173.66locomotor behavior trait (VT:0001392)number of entries into a discrete space in an experimental apparatus (CMO:0000960)71509236116977875Rat
724560Plsm3Polydactyly-luxate syndrome (PLS) morphotypes QTL 30.0003tibia length (VT:0004357)tibia length (CMO:0000450)7134650782Rat
9590142Scort5Serum corticosterone level QTL 524.40.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)7132612984Rat
1582260Bw72Body weight QTL 723.20.0043body mass (VT:0001259)body weight (CMO:0000012)7139960528Rat
1582261Bw69Body weight QTL 693.20.0048body mass (VT:0001259)body weight (CMO:0000012)7139960528Rat
1582262Bw75Body weight QTL 7530.0038body mass (VT:0001259)body weight (CMO:0000012)7139960528Rat
7411566Bw136Body weight QTL 13610.40.001body mass (VT:0001259)body weight gain (CMO:0000420)7132612984Rat


Expression

RNA-SEQ Expression

alimentary part of gastrointestinal system
appendage
circulatory system
ectoderm
endocrine system
endoderm
exocrine system
hemolymphoid system
hepatobiliary system
integumental system
mesenchyme
mesoderm
musculoskeletal system
nervous system
renal system
reproductive system
respiratory system
sensory system
visual system
19 12 73 201 91 90 59 136 59 6 427 244 13 182 97 112 31 31 31

Sequence


Ensembl Acc Id: ENSRNOT00000061995   ⟹   ENSRNOP00000058705
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl71,557,926 - 1,560,423 (-)Ensembl
mRatBN7.2 Ensembl7973,414 - 978,921 (-)Ensembl
Rnor_6.0 Ensembl72,968,435 - 2,972,521 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000105251   ⟹   ENSRNOP00000081152
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl71,557,332 - 1,564,332 (-)Ensembl
mRatBN7.2 Ensembl7972,855 - 979,349 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000106284   ⟹   ENSRNOP00000090698
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl71,557,705 - 1,563,664 (-)Ensembl
mRatBN7.2 Ensembl7972,986 - 977,454 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000128644   ⟹   ENSRNOP00000101781
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl71,556,550 - 1,563,951 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000134785   ⟹   ENSRNOP00000110674
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl71,550,764 - 1,563,951 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000142689   ⟹   ENSRNOP00000105235
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl71,557,277 - 1,564,332 (-)Ensembl
RefSeq Acc Id: NM_001191090   ⟹   NP_001178019
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr871,557,948 - 1,562,041 (-)NCBI
mRatBN7.27973,415 - 977,509 (-)NCBI
Rnor_6.072,968,428 - 2,972,521 (-)NCBI
Rnor_5.072,942,056 - 2,946,149 (-)NCBI
Celera7844,004 - 848,097 (-)NCBI
Sequence:
RefSeq Acc Id: XM_008765041   ⟹   XP_008763263
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr871,557,948 - 1,561,612 (-)NCBI
mRatBN7.27973,415 - 977,406 (-)NCBI
Rnor_6.072,968,428 - 2,972,466 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017595116   ⟹   XP_017450605
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr871,557,948 - 1,560,907 (-)NCBI
mRatBN7.27973,415 - 976,527 (-)NCBI
Rnor_6.072,968,428 - 2,971,393 (-)NCBI
Sequence:
RefSeq Acc Id: XM_039079909   ⟹   XP_038935837
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr871,557,948 - 1,562,076 (-)NCBI
mRatBN7.27973,415 - 976,698 (-)NCBI
RefSeq Acc Id: XM_039079910   ⟹   XP_038935838
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr871,557,948 - 1,562,129 (-)NCBI
mRatBN7.27973,415 - 977,742 (-)NCBI
RefSeq Acc Id: NP_001178019   ⟸   NM_001191090
- UniProtKB: D3ZLM7 (UniProtKB/TrEMBL),   A6KSE9 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_008763263   ⟸   XM_008765041
- Peptide Label: isoform X1
- UniProtKB: D3ZLM7 (UniProtKB/TrEMBL),   A6KSE9 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_017450605   ⟸   XM_017595116
- Peptide Label: isoform X1
- UniProtKB: D3ZLM7 (UniProtKB/TrEMBL),   A6KSE9 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000058705   ⟸   ENSRNOT00000061995
RefSeq Acc Id: XP_038935838   ⟸   XM_039079910
- Peptide Label: isoform X1
- UniProtKB: D3ZLM7 (UniProtKB/TrEMBL),   A6KSE9 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038935837   ⟸   XM_039079909
- Peptide Label: isoform X1
- UniProtKB: D3ZLM7 (UniProtKB/TrEMBL),   A6KSE9 (UniProtKB/TrEMBL)
Ensembl Acc Id: ENSRNOP00000081152   ⟸   ENSRNOT00000105251
Ensembl Acc Id: ENSRNOP00000090698   ⟸   ENSRNOT00000106284
Ensembl Acc Id: ENSRNOP00000110674   ⟸   ENSRNOT00000134785
Ensembl Acc Id: ENSRNOP00000105235   ⟸   ENSRNOT00000142689
Ensembl Acc Id: ENSRNOP00000101781   ⟸   ENSRNOT00000128644
Protein Domains
C3H1-type

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D3ZLM7-F1-model_v2 AlphaFold D3ZLM7 1-435 view protein structure

Transcriptome

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

Promoters
RGD ID:13694942
Promoter ID:EPDNEW_R5467
Type:multiple initiation site
Name:Zc3h10_1
Description:zinc finger CCCH type containing 10
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_6.072,972,530 - 2,972,590EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1587846 AgrOrtholog
BioCyc Gene G2FUF-35355 BioCyc
Ensembl Genes ENSRNOG00000040281 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000061995 ENTREZGENE
  ENSRNOT00000061995.5 UniProtKB/TrEMBL
  ENSRNOT00000105251.2 UniProtKB/TrEMBL
  ENSRNOT00000106284 ENTREZGENE
  ENSRNOT00000106284.2 UniProtKB/TrEMBL
  ENSRNOT00000128644.1 UniProtKB/TrEMBL
  ENSRNOT00000134785.1 UniProtKB/TrEMBL
  ENSRNOT00000142689 ENTREZGENE
  ENSRNOT00000142689.1 UniProtKB/TrEMBL
Gene3D-CATH 3.30.1370.210 UniProtKB/TrEMBL
InterPro Znf_CCCH UniProtKB/TrEMBL
KEGG Report rno:685928 UniProtKB/TrEMBL
NCBI Gene 685928 ENTREZGENE
PANTHER MUSCLEBLIND-LIKE PROTEIN UniProtKB/TrEMBL
  ZINC FINGER CCCH DOMAIN-CONTAINING PROTEIN 10 UniProtKB/TrEMBL
Pfam zf-CCCH UniProtKB/TrEMBL
  zf-CCCH_2 UniProtKB/TrEMBL
PhenoGen Zc3h10 PhenoGen
PROSITE ZF_C3H1 UniProtKB/TrEMBL
RatGTEx ENSRNOG00000040281 RatGTEx
SMART ZnF_C3H1 UniProtKB/TrEMBL
UniProt A0A8I5ZUG4_RAT UniProtKB/TrEMBL
  A6KSE9 ENTREZGENE, UniProtKB/TrEMBL
  D3ZLM7 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2013-05-24 Zc3h10  zinc finger CCCH type containing 10  LOC684563  similar to zinc finger CCCH-type containing 10  Data merged from RGD:1589122 1643240 APPROVED
2008-03-05 Zc3h10  zinc finger CCCH type containing 10  LOC685928  similar to zinc finger CCCH-type containing 10  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2006-11-19 LOC685928  similar to zinc finger CCCH-type containing 10      Symbol and Name status set to provisional 70820 PROVISIONAL
2006-11-19 LOC684563  similar to zinc finger CCCH-type containing 10      Symbol and Name status set to provisional 70820 PROVISIONAL