ZKSCAN5 (zinc finger with KRAB and SCAN domains 5) - Rat Genome Database

Send us a Message
Submit Data |  Help |  Video Tutorials |  News |  Publications |  Download |  REST API |  Citing RGD |  Contact   
Search RGD Grant Resources Citing RGD About Us Contact Us
Genes Variants Community Projects QTLs Strains Markers Genome Information Ontologies Cell Lines References Download Submit Data
OntoMate (Literature Search) JBrowse (Genome Browser) Synteny Browser (VCMap) Variant Visualizer Multi-Ontology Enrichment (MOET) Gene-Ortholog Location Finder (GOLF) InterViewer (Protein-Protein Interactions) PhenoMiner (Quatitative Phenotypes) Gene Annotator OLGA (Gene List Generator) AllianceMine GViewer (Genome Viewer)
Aging & Age-Related Disease Cancer & Neoplastic Disease Cardiovascular Disease Coronavirus Disease Developmental Disease Diabetes Hematologic Disease Immune & Inflammatory Disease Infectious Disease Liver Disease Neurological Disease Obesity & Metabolic Syndrome Renal Disease Respiratory Disease Sensory Organ Disease
Find Models   new Genetic Models Autism Models Rat PhenoMiner (Quantitative Phenotypes) Chinchilla PhenoMiner Expected Ranges (Quantitative Phenotype) PhenoMiner Term Comparison Hybrid Rat Diversity Panel Phenotypes Phenotypes in Other Animal Models Animal Husbandry Strain Medical Records Phylogenetics Strain Availability Calendar Rats 101 Submissions Photo Archive
Pathways
Rat Community Forum Directory of Rat Laboratories Video Tutorials News RGD Publications RGD Presentations Archive Nomenclature Guidelines Resource Links Laboratory Resources Employment Resources
Gene: ZKSCAN5 (zinc finger with KRAB and SCAN domains 5) Chlorocebus sabaeus
Analyze
Symbol: ZKSCAN5
Name: zinc finger with KRAB and SCAN domains 5
RGD ID: 18703461
Description: ENCODES a protein that exhibits DNA binding (inferred); DNA-binding transcription factor activity, RNA polymerase II-specific (inferred); metal ion binding (inferred); INVOLVED IN regulation of DNA-templated transcription (inferred); regulation of transcription by RNA polymerase II (inferred); ASSOCIATED WITH pleomorphic xanthoastrocytoma (ortholog); FOUND IN nucleus (inferred)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: zinc finger protein with KRAB and SCAN domains 5
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: ChlSab1.1 - Green Monkey 1.1 Assembly
Position:
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12813,630,936 - 13,662,654 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl2813,630,174 - 13,660,822 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_0236660702,642,439 - 2,674,879 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
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
nucleus  (IEA)

References
Additional References at PubMed
PMID:30032202  


Genomics

Comparative Map Data
ZKSCAN5
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12813,630,936 - 13,662,654 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl2813,630,174 - 13,660,822 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_0236660702,642,439 - 2,674,879 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
ZKSCAN5
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38799,504,662 - 99,534,700 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl799,504,662 - 99,534,700 (+)EnsemblGRCh38hg38GRCh38
GRCh37799,102,285 - 99,132,323 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36798,940,209 - 98,969,381 (+)NCBINCBI36Build 36hg18NCBI36
Build 34798,746,946 - 98,776,095NCBI
Celera793,836,480 - 93,865,674 (+)NCBICelera
Cytogenetic Map7q22.1NCBI
HuRef793,738,975 - 93,768,214 (+)NCBIHuRef
CHM1_1799,032,363 - 99,061,544 (+)NCBICHM1_1
T2T-CHM13v2.07100,739,627 - 100,773,622 (+)NCBIT2T-CHM13v2.0
CRA_TCAGchr7v2798,462,045 - 98,491,238 (+)NCBI
Zkscan5
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm395145,141,349 - 145,158,562 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl5145,141,372 - 145,158,560 (+)EnsemblGRCm39 Ensembl
GRCm385145,204,559 - 145,221,752 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl5145,204,562 - 145,221,750 (+)EnsemblGRCm38mm10GRCm38
MGSCv375145,965,428 - 145,982,619 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv365145,458,771 - 145,475,277 (+)NCBIMGSCv36mm8
Celera5142,196,607 - 142,213,789 (+)NCBICelera
Cytogenetic Map5G2NCBI
cM Map585.14NCBI
Zkscan5
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81214,498,342 - 14,519,537 (-)NCBIGRCr8
mRatBN7.2129,384,561 - 9,405,763 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl129,384,571 - 9,405,881 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1210,190,262 - 10,211,426 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01210,813,465 - 10,834,630 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0129,836,889 - 9,858,054 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01211,154,807 - 11,176,002 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1211,154,794 - 11,176,106 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01213,224,021 - 13,245,216 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4129,697,741 - 9,718,773 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1129,728,288 - 9,748,150 (-)NCBI
Celera1211,189,559 - 11,210,703 (-)NCBICelera
Cytogenetic Map12p11NCBI
Zkscan5
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495546015,173,718 - 15,196,207 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495546015,173,397 - 15,196,590 (+)NCBIChiLan1.0ChiLan1.0
ZKSCAN5
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v26117,360,729 - 117,395,215 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan17165,625,379 - 165,659,673 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0791,476,962 - 91,507,469 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.17104,979,714 - 105,009,521 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl7104,979,816 - 105,009,236 (+)Ensemblpanpan1.1panPan2
ZKSCAN5
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1610,010,083 - 10,031,482 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl610,011,321 - 10,031,624 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha611,636,650 - 11,657,369 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0610,010,757 - 10,031,478 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl610,008,764 - 10,031,429 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.169,874,068 - 9,894,747 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.069,858,964 - 9,879,736 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0610,093,349 - 10,114,058 (-)NCBIUU_Cfam_GSD_1.0
Zkscan5
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024409344138,120,730 - 138,139,773 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049367501,805,484 - 1,824,743 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049367501,805,534 - 1,825,582 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
ZKSCAN5
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl36,442,391 - 6,466,430 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.136,442,315 - 6,464,718 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.236,589,045 - 6,611,406 (-)NCBISscrofa10.2Sscrofa10.2susScr3
Zkscan5
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462474032,945,659 - 32,970,323 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462474032,944,867 - 32,970,991 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2


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

endocrine system hemolymphoid system nervous system
High
Medium 4 16
Low 32 20 44
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSCSAT00000015898   ⟹   ENSCSAP00000013824
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
ChlSab1.1 Ensembl2813,630,174 - 13,660,822 (-)Ensembl
RefSeq Acc Id: XM_008018621   ⟹   XP_008016812
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
ChlSab1.12813,630,936 - 13,662,119 (-)NCBI
Vero_WHO_p1.0NW_0236660702,644,194 - 2,674,516 (+)NCBI
Sequence:
RefSeq Acc Id: XM_008018622   ⟹   XP_008016813
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
ChlSab1.12813,630,936 - 13,662,654 (-)NCBI
Vero_WHO_p1.0NW_0236660702,642,439 - 2,674,516 (+)NCBI
Sequence:
RefSeq Acc Id: XM_008018623   ⟹   XP_008016814
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
ChlSab1.12813,630,936 - 13,662,654 (-)NCBI
Vero_WHO_p1.0NW_0236660702,642,439 - 2,674,516 (+)NCBI
Sequence:
RefSeq Acc Id: XM_008018624   ⟹   XP_008016815
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
ChlSab1.12813,631,594 - 13,662,119 (-)NCBI
Vero_WHO_p1.0NW_0236660702,644,194 - 2,674,516 (+)NCBI
Sequence:
RefSeq Acc Id: XM_008018625   ⟹   XP_008016816
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
ChlSab1.12813,631,594 - 13,662,119 (-)NCBI
Vero_WHO_p1.0NW_0236660702,644,194 - 2,674,516 (+)NCBI
Sequence:
RefSeq Acc Id: XM_037990542   ⟹   XP_037846470
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
Vero_WHO_p1.0NW_0236660702,645,260 - 2,674,516 (+)NCBI
RefSeq Acc Id: XM_037990543   ⟹   XP_037846471
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
Vero_WHO_p1.0NW_0236660702,644,194 - 2,674,879 (+)NCBI
Reference Protein Sequences
RefSeq Acc Id: XP_008016813   ⟸   XM_008018622
- Peptide Label: isoform X1
RefSeq Acc Id: XP_008016814   ⟸   XM_008018623
- Peptide Label: isoform X1
RefSeq Acc Id: XP_008016812   ⟸   XM_008018621
- Peptide Label: isoform X1
RefSeq Acc Id: XP_008016816   ⟸   XM_008018625
- Peptide Label: isoform X3
RefSeq Acc Id: XP_008016815   ⟸   XM_008018624
- Peptide Label: isoform X2
RefSeq Acc Id: ENSCSAP00000013824   ⟸   ENSCSAT00000015898
RefSeq Acc Id: XP_037846471   ⟸   XM_037990543
- Peptide Label: isoform X5
RefSeq Acc Id: XP_037846470   ⟸   XM_037990542
- Peptide Label: isoform X4


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSCSAG00000017802 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSCSAT00000015898.1 UniProtKB/TrEMBL
Gene3D-CATH 1.10.4020.10 UniProtKB/TrEMBL
  6.10.140.140 UniProtKB/TrEMBL
  Classic Zinc Finger UniProtKB/TrEMBL
InterPro KRAB UniProtKB/TrEMBL
  KRAB_dom_sf UniProtKB/TrEMBL
  SCAN_dom UniProtKB/TrEMBL
  SCAN_sf UniProtKB/TrEMBL
  Znf_C2H2_sf UniProtKB/TrEMBL
  Znf_C2H2_type UniProtKB/TrEMBL
NCBI Gene ZKSCAN5 ENTREZGENE
PANTHER ZINC FINGER AND BTB DOMAIN-CONTAINING PROTEIN 17 UniProtKB/TrEMBL
  ZINC FINGER PROTEIN 142 UniProtKB/TrEMBL
Pfam KRAB UniProtKB/TrEMBL
  SCAN UniProtKB/TrEMBL
  zf-C2H2 UniProtKB/TrEMBL
PROSITE KRAB UniProtKB/TrEMBL
  SCAN_BOX UniProtKB/TrEMBL
  ZINC_FINGER_C2H2_1 UniProtKB/TrEMBL
  ZINC_FINGER_C2H2_2 UniProtKB/TrEMBL
SMART KRAB UniProtKB/TrEMBL
  SCAN UniProtKB/TrEMBL
  ZnF_C2H2 UniProtKB/TrEMBL
Superfamily-SCOP Retrovirus capsid dimerization domain-like UniProtKB/TrEMBL
  SSF109640 UniProtKB/TrEMBL
  SSF57667 UniProtKB/TrEMBL
UniProt A0A0D9RYY5_CHLSB UniProtKB/TrEMBL