Zc3h13 (zinc finger CCCH type containing 13) - Rat Genome Database

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Gene: Zc3h13 (zinc finger CCCH type containing 13) Rattus norvegicus
Analyze
Symbol: Zc3h13
Name: zinc finger CCCH type containing 13
RGD ID: 1307729
Description: Predicted to enable metal ion binding activity. Predicted to be involved in mRNA methylation and regulation of stem cell population maintenance. Predicted to be located in nucleoplasm. Predicted to be part of RNA N6-methyladenosine methyltransferase complex. Predicted to be active in nuclear speck. Orthologous to human ZC3H13 (zinc finger CCCH-type containing 13); INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; 3,4-dichloroaniline; 6-propyl-2-thiouracil.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: LOC305955; RGD1307729; similar to KIAA0853 protein; zinc finger CCCH domain-containing protein 13
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
mRatBN7.21550,607,335 - 50,671,802 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1550,607,380 - 50,671,802 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1554,749,591 - 54,814,076 (+)NCBIRnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.01555,867,907 - 55,932,392 (+)NCBIRnor_SHRSP
UTH_Rnor_WKY_Bbb_1.01552,699,670 - 52,764,148 (+)NCBIRnor_WKY
Rnor_6.01557,340,522 - 57,405,287 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1557,340,579 - 57,405,287 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01561,051,510 - 61,116,257 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41556,155,138 - 56,219,559 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11556,174,788 - 56,240,891 (+)NCBI
Celera1550,238,361 - 50,302,781 (+)NCBICelera
Cytogenetic Map15q11NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View
High Myopia  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

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. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
4. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:12477932   PMID:22681889   PMID:24100041   PMID:25002582   PMID:29507755   PMID:29547716  


Genomics

Comparative Map Data
Zc3h13
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21550,607,335 - 50,671,802 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1550,607,380 - 50,671,802 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1554,749,591 - 54,814,076 (+)NCBIRnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.01555,867,907 - 55,932,392 (+)NCBIRnor_SHRSP
UTH_Rnor_WKY_Bbb_1.01552,699,670 - 52,764,148 (+)NCBIRnor_WKY
Rnor_6.01557,340,522 - 57,405,287 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1557,340,579 - 57,405,287 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01561,051,510 - 61,116,257 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41556,155,138 - 56,219,559 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11556,174,788 - 56,240,891 (+)NCBI
Celera1550,238,361 - 50,302,781 (+)NCBICelera
Cytogenetic Map15q11NCBI
ZC3H13
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381345,954,465 - 46,052,746 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p13 Ensembl1345,954,465 - 46,052,759 (-)EnsemblGRCh38hg38GRCh38
GRCh371346,528,600 - 46,626,881 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361345,434,315 - 45,524,895 (-)NCBINCBI36Build 36hg18NCBI36
Build 341345,434,314 - 45,524,895NCBI
Celera1327,591,025 - 27,681,609 (-)NCBICelera
Cytogenetic Map13q14.13NCBI
HuRef1327,333,240 - 27,423,859 (-)NCBIHuRef
CHM1_11346,505,477 - 46,596,033 (-)NCBICHM1_1
T2T-CHM13v2.01345,175,847 - 45,274,136 (-)NCBIT2T-CHM13v2.0
Zc3h13
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391475,521,746 - 75,581,873 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1475,521,813 - 75,581,866 (+)EnsemblGRCm39 Ensembl
GRCm381475,284,306 - 75,344,433 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1475,284,373 - 75,344,426 (+)EnsemblGRCm38mm10GRCm38
MGSCv371475,684,180 - 75,744,233 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361474,018,528 - 74,078,581 (+)NCBIMGSCv36mm8
Celera1472,786,372 - 72,846,301 (+)NCBICelera
Cytogenetic Map14D3NCBI
Zc3h13
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049555183,658,723 - 3,731,174 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049555183,657,054 - 3,740,176 (-)NCBIChiLan1.0ChiLan1.0
ZC3H13
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Mhudiblu_PPA_v01326,979,940 - 27,077,345 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
ZC3H13
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1225,127,094 - 5,219,456 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl225,133,249 - 5,217,908 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha225,113,628 - 5,206,281 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0225,242,468 - 5,334,971 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl225,242,489 - 5,333,535 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1225,024,540 - 5,117,144 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0225,088,004 - 5,180,629 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0225,092,969 - 5,185,595 (+)NCBIUU_Cfam_GSD_1.0
Zc3h13
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024404945156,072,701 - 156,154,729 (-)NCBIHiC_Itri_2
SpeTri2.0NW_004936857495,904 - 576,984 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
ZC3H13
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1121,298,855 - 21,387,968 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11121,298,855 - 21,387,557 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21121,758,282 - 21,840,038 (+)NCBISscrofa10.2Sscrofa10.2susScr3
ZC3H13
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1324,013,592 - 24,109,227 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl324,014,794 - 24,101,969 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366605719,907,661 - 20,003,619 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Zc3h13
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046247488,937,527 - 9,010,977 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046247488,928,475 - 9,013,430 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Position Markers
RH139464  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21550,671,379 - 50,671,573 (+)MAPPERmRatBN7.2
mRatBN7.21537,033,392 - 37,033,586 (+)MAPPERmRatBN7.2
Rnor_6.01557,404,865 - 57,405,058NCBIRnor6.0
Rnor_6.01545,958,895 - 45,959,088NCBIRnor6.0
Rnor_5.01561,115,835 - 61,116,028UniSTSRnor5.0
Rnor_5.01549,724,925 - 49,725,118UniSTSRnor5.0
RGSC_v3.41542,042,732 - 42,042,925UniSTSRGSC3.4
RGSC_v3.41556,219,137 - 56,219,330UniSTSRGSC3.4
Celera1550,302,359 - 50,302,552UniSTS
Celera1536,719,511 - 36,719,704UniSTS
Cytogenetic Map15q11UniSTS
RH143412  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21550,607,450 - 50,607,651 (+)MAPPERmRatBN7.2
Rnor_6.01557,340,650 - 57,340,850NCBIRnor6.0
Rnor_5.01561,051,620 - 61,051,820UniSTSRnor5.0
RGSC_v3.41556,155,209 - 56,155,409UniSTSRGSC3.4
Celera1550,238,432 - 50,238,632UniSTS
Cytogenetic Map15q11UniSTS
RH136779  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21537,033,392 - 37,033,491 (+)MAPPERmRatBN7.2
mRatBN7.21550,671,379 - 50,671,478 (+)MAPPERmRatBN7.2
Rnor_6.01557,404,865 - 57,404,963NCBIRnor6.0
Rnor_6.01545,958,895 - 45,958,993NCBIRnor6.0
Rnor_5.01561,115,835 - 61,115,933UniSTSRnor5.0
Rnor_5.01549,724,925 - 49,725,023UniSTSRnor5.0
RGSC_v3.41542,042,732 - 42,042,830UniSTSRGSC3.4
RGSC_v3.41556,219,137 - 56,219,235UniSTSRGSC3.4
Celera1550,302,359 - 50,302,457UniSTS
Celera1536,719,511 - 36,719,609UniSTS
Cytogenetic Map15q11UniSTS
AU049533  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21550,640,009 - 50,640,188 (+)MAPPERmRatBN7.2
Rnor_6.01557,373,495 - 57,373,673NCBIRnor6.0
Rnor_5.01561,084,465 - 61,084,643UniSTSRnor5.0
RGSC_v3.41556,187,767 - 56,187,945UniSTSRGSC3.4
Celera1550,270,989 - 50,271,167UniSTS
Cytogenetic Map15q11UniSTS


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
2298549Neuinf12Neuroinflammation QTL 123.5nervous system integrity trait (VT:0010566)spinal cord beta-2 microglobulin mRNA level (CMO:0002125)15155302115Rat
631273Lecl2Lens clarity QTL 20.001lens clarity trait (VT:0001304)age of onset/diagnosis of cataract (CMO:0001584)151059608955596089Rat
2300167Bmd63Bone mineral density QTL 635.90.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)151111114256111142Rat
2300173Bmd62Bone mineral density QTL 6212.80.0001lumbar vertebra mineral mass (VT:0010511)volumetric bone mineral density (CMO:0001553)151111114256111142Rat
2293688Bss29Bone structure and strength QTL 295.310.0001femur morphology trait (VT:0000559)femur midshaft cortical cross-sectional area (CMO:0001663)151111114256111142Rat
2317750Glom26Glomerulus QTL 264.3urine protein amount (VT:0005160)urine protein level (CMO:0000591)151249614165205939Rat
61424Scl1Serum cholesterol level QTL 17.70.001blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)151672552880672115Rat
1331729Rf42Renal function QTL 423.071kidney blood vessel physiology trait (VT:0100012)absolute change in renal blood flow rate (CMO:0001168)151736289773690657Rat
10054130Srcrt8Stress Responsive Cort QTL 82.180.0085blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)152211793367117933Rat
1578646Bmd18Bone mineral density QTL 185.2femur mineral mass (VT:0010011)trabecular volumetric bone mineral density (CMO:0001729)152280624098288169Rat
1578647Bmd17Bone mineral density QTL 174femur mineral mass (VT:0010011)total volumetric bone mineral density (CMO:0001728)152280624098288169Rat
1578660Bss19Bone structure and strength QTL 194.3femur morphology trait (VT:0000559)bone trabecular cross-sectional area (CMO:0002311)152280624098288169Rat
1582214Stl21Serum triglyceride level QTL 213.10.022blood triglyceride amount (VT:0002644)serum triglyceride level (CMO:0000360)152803066582262678Rat
1582227Gluco30Glucose level QTL 303.60.0003blood glucose amount (VT:0000188)absolute change in blood glucose level area under curve (CMO:0002034)152803066582262678Rat
1582228Epfw3Epididymal fat weight QTL 34.10.0002epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)152803066582262678Rat
1582242Gluco28Glucose level QTL 283.30.0008blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)152803066582262678Rat
1582244Bw79Body weight QTL 7940.0002epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)152803066582262678Rat
2293691Bmd37Bone mineral density QTL 376.60.0001femur strength trait (VT:0010010)femur total energy absorbed before break (CMO:0001677)153361105871477291Rat
2293686Bmd36Bone mineral density QTL 367.40.0001femur strength trait (VT:0010010)femoral neck ultimate force (CMO:0001703)153361105871477291Rat
1598828Glom14Glomerulus QTL 142.5kidney glomerulus morphology trait (VT:0005325)index of glomerular damage (CMO:0001135)153405413979054139Rat
1300144Rf23Renal function QTL 233.61renal blood flow trait (VT:2000006)absolute change in renal vascular resistance (CMO:0001900)154063126898288169Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:96
Count of miRNA genes:72
Interacting mature miRNAs:89
Transcripts:ENSRNOT00000015467
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


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 3 30 31 17 19 17 1 72 34 34 11
Low 13 26 24 24 8 10 2 1 7 8
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000015467   ⟹   ENSRNOP00000015467
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1550,607,380 - 50,671,802 (+)Ensembl
Rnor_6.0 Ensembl1557,340,579 - 57,405,287 (+)Ensembl
RefSeq Acc Id: NM_001170471   ⟹   NP_001163942
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21550,607,380 - 50,671,802 (+)NCBI
Rnor_6.01557,340,579 - 57,405,287 (+)NCBI
Rnor_5.01561,051,510 - 61,116,257 (+)NCBI
RGSC_v3.41556,155,138 - 56,219,559 (+)RGD
Celera1550,238,361 - 50,302,781 (+)RGD
Sequence:
RefSeq Acc Id: XM_006252316   ⟹   XP_006252378
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21550,607,336 - 50,671,762 (+)NCBI
Rnor_6.01557,340,523 - 57,405,247 (+)NCBI
Rnor_5.01561,051,510 - 61,116,257 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006252317   ⟹   XP_006252379
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21550,607,335 - 50,671,762 (+)NCBI
Rnor_6.01557,340,522 - 57,405,247 (+)NCBI
Rnor_5.01561,051,510 - 61,116,257 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017599690   ⟹   XP_017455179
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21550,607,336 - 50,671,762 (+)NCBI
Rnor_6.01557,340,522 - 57,405,247 (+)NCBI
Sequence:
Protein Sequences
Protein RefSeqs NP_001163942 (Get FASTA)   NCBI Sequence Viewer  
  XP_006252378 (Get FASTA)   NCBI Sequence Viewer  
  XP_006252379 (Get FASTA)   NCBI Sequence Viewer  
  XP_017455179 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAI58718 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: NP_001163942   ⟸   NM_001170471
- UniProtKB: B0BN80 (UniProtKB/TrEMBL),   E9PSN4 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006252379   ⟸   XM_006252317
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: XP_006252378   ⟸   XM_006252316
- Peptide Label: isoform X1
- UniProtKB: E9PSN4 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_017455179   ⟸   XM_017599690
- Peptide Label: isoform X3
- Sequence:
RefSeq Acc Id: ENSRNOP00000015467   ⟸   ENSRNOT00000015467
Protein Domains
C3H1-type

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-E9PSN4-F1-model_v2 AlphaFold E9PSN4 1-1728 view protein structure

Transcriptome

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

Promoters
RGD ID:13699830
Promoter ID:EPDNEW_R10354
Type:initiation region
Name:Zc3h13_1
Description:zinc finger CCCH type containing 13
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_6.01557,340,584 - 57,340,644EPDNEW

Strain Variation

Strain Sequence Variants (mRatBN7.2)
ACI/EurMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
ACI/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN-Lx/CubMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/NHsdMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/NHsdMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/SsN (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BUF/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BXH2/CubMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BXH3/CubMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
DA/OlaHsd (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/DuCrl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/NCrl (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/Stm (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FHH/EurMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FXLE16/Stm (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FXLE18/Stm (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
GK/FarMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB10/IpcvMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB2/IpcvMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB20/IpcvMcwi (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB31/IpcvMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB4/IpcvMcwi (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LE/Stm (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEW/Crl (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF10A/StmMcwi (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF11/Stm (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF1A/Stm (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF1C/Stm (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF2B/Stm (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF3/Stm (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF4/Stm (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LH/MavRrrcAek (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LL/MavRrrcAek (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LN/MavRrrcAek (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
M520/N (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
M520/NRrrcMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
MR/N (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
MWF/Hsd (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
PVG/Seac (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SHR/OlalpcvMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SHRSP/A3NCrl (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SR/JrHsd (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SS/JrHsdMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WAG/RijCrl (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/N (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/NCrl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WN/N (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1307729 AgrOrtholog
BioCyc Gene G2FUF-13127 BioCyc
Ensembl Genes ENSRNOG00000011237 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000015467 ENTREZGENE
  ENSRNOP00000015467.5 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000015467 ENTREZGENE
  ENSRNOT00000015467.6 UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:9089272 IMAGE-MGC_LOAD
InterPro Znf_CCCH UniProtKB/TrEMBL
  Znf_CCCH_sf UniProtKB/TrEMBL
KEGG Report rno:305955 UniProtKB/TrEMBL
MGC_CLONE MGC:187860 IMAGE-MGC_LOAD
NCBI Gene 305955 ENTREZGENE
Pfam zf-CCCH UniProtKB/TrEMBL
PhenoGen Zc3h13 PhenoGen
PROSITE ZF_C3H1 UniProtKB/TrEMBL
SMART ZnF_C3H1 UniProtKB/TrEMBL
Superfamily-SCOP SSF90229 UniProtKB/TrEMBL
UniProt B0BN80 ENTREZGENE, UniProtKB/TrEMBL
  E9PSN4 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-03-07 Zc3h13  zinc finger CCCH type containing 13  RGD1307729_predicted  similar to KIAA0853 protein (predicted)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2005-01-20 RGD1307729_predicted  similar to KIAA0853 protein (predicted)  LOC305955_predicted    Symbol and Name status set to approved 1331353 APPROVED
2005-01-12 LOC305955_predicted  similar to KIAA0853 protein (predicted)      Symbol and Name status set to provisional 70820 PROVISIONAL