Zkscan4 (zinc finger with KRAB and SCAN domains 4) - Rat Genome Database

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Gene: Zkscan4 (zinc finger with KRAB and SCAN domains 4) Rattus norvegicus
Analyze
Symbol: Zkscan4
Name: zinc finger with KRAB and SCAN domains 4
RGD ID: 1309004
Description: Predicted to enable DNA-binding transcription factor activity, RNA polymerase II-specific; RNA polymerase II cis-regulatory region sequence-specific DNA binding activity; and identical protein binding activity. Predicted to be involved in regulation of transcription by RNA polymerase II. Predicted to be located in nucleoplasm. Orthologous to human ZKSCAN4 (zinc finger with KRAB and SCAN domains 4); INTERACTS WITH tetrachloromethane; 1,1,1-trichloroethane (ortholog); 1,2-dimethylhydrazine (ortholog).
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: LOC291164; similar to zinc finger protein 307; Zfp307; zinc finger protein 307; zinc finger protein with KRAB and SCAN domains 4; Znf307
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Alliance Orthologs
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81747,800,586 - 47,808,833 (-)NCBIGRCr8
mRatBN7.21743,104,853 - 43,113,101 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1743,106,370 - 43,113,183 (-)EnsemblmRatBN7.2 Ensembl
Rnor_6.01745,144,000 - 45,154,973 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1745,148,646 - 45,154,355 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01758,313,739 - 58,324,071 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41750,749,545 - 50,755,739 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11750,752,385 - 50,758,580 (-)NCBI
Celera1753,354,175 - 53,365,001 (+)NCBICelera
Cytogenetic Map17p11NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View
megacolon  (ISO)
schizophrenia  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component
nucleoplasm  (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:25416956   PMID:26871637  


Genomics

Comparative Map Data
Zkscan4
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81747,800,586 - 47,808,833 (-)NCBIGRCr8
mRatBN7.21743,104,853 - 43,113,101 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1743,106,370 - 43,113,183 (-)EnsemblmRatBN7.2 Ensembl
Rnor_6.01745,144,000 - 45,154,973 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1745,148,646 - 45,154,355 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01758,313,739 - 58,324,071 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41750,749,545 - 50,755,739 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11750,752,385 - 50,758,580 (-)NCBI
Celera1753,354,175 - 53,365,001 (+)NCBICelera
Cytogenetic Map17p11NCBI
ZKSCAN4
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38628,241,697 - 28,259,211 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl628,241,697 - 28,252,269 (-)EnsemblGRCh38hg38GRCh38
GRCh37628,209,475 - 28,226,989 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36628,320,469 - 28,327,981 (-)NCBINCBI36Build 36hg18NCBI36
Build 34628,320,468 - 28,327,981NCBI
Celera629,818,944 - 29,826,449 (-)NCBICelera
Cytogenetic Map6p22.1NCBI
HuRef628,020,146 - 28,027,658 (-)NCBIHuRef
CHM1_1628,214,857 - 28,222,369 (-)NCBICHM1_1
T2T-CHM13v2.0628,113,435 - 28,131,010 (-)NCBIT2T-CHM13v2.0
Zkscan4
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391321,663,019 - 21,669,677 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1321,663,019 - 21,669,677 (+)EnsemblGRCm39 Ensembl
GRCm381321,478,849 - 21,485,507 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1321,478,907 - 21,485,507 (+)EnsemblGRCm38mm10GRCm38
MGSCv371321,570,776 - 21,577,376 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361321,486,372 - 21,492,972 (+)NCBIMGSCv36mm8
Celera1321,746,573 - 21,753,173 (+)NCBICelera
Cytogenetic Map13A3.1NCBI
cM Map137.82NCBI
Zkscan4
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0NW_00495546513,611,669 - 13,617,147 (-)NCBIChiLan1.0ChiLan1.0
ZKSCAN4
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2542,860,529 - 42,868,467 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1638,857,773 - 38,869,304 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0628,043,634 - 28,061,996 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1628,717,815 - 28,734,152 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl628,718,522 - 28,727,201 (-)Ensemblpanpan1.1panPan2
ZKSCAN4
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.13525,381,935 - 25,389,116 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha3525,240,000 - 25,247,506 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.03525,679,900 - 25,687,410 (-)NCBIROS_Cfam_1.0
UMICH_Zoey_3.13525,344,749 - 25,352,253 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.03525,397,766 - 25,405,288 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.03526,866,173 - 26,873,685 (-)NCBIUU_Cfam_GSD_1.0
Zkscan4
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494628,669,849 - 28,678,033 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_004936772107,416 - 115,613 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_004936772107,462 - 116,211 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
ZKSCAN4
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl722,093,059 - 22,101,839 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1722,092,465 - 22,105,666 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2724,036,992 - 24,076,992 (+)NCBISscrofa10.2Sscrofa10.2susScr3
ZKSCAN4
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11744,329,910 - 44,338,737 (+)NCBIChlSab1.1ChlSab1.1chlSab2
Vero_WHO_p1.0NW_02366604427,903,118 - 27,914,674 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0

Variants

.
Variants in Zkscan4
20 total Variants

QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
631497Bp98Blood pressure QTL 983.66arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)174135465160463643Rat
1354581Bp247Blood pressure QTL 2474.5arterial blood pressure trait (VT:2000000)pulse pressure (CMO:0000292)17169599340Rat
1358295Aocep1Aortic cell protein QTL 16.17e-07thoracic aorta cellular protein amount (VT:0010598)aortic cell percentage174099000585990005Rat
1354640Scl32Serum cholesterol level QTL 325.4blood HDL cholesterol amount (VT:0000184)blood high density lipoprotein cholesterol level (CMO:0000052)171578159260781592Rat
152023626Bp403Blood pressure QTL 4033.86arterial blood pressure trait (VT:2000000)172393042179524188Rat
2301412Kidm40Kidney mass QTL 400.001kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)173747984782479847Rat
9590107Sffal7Serum free fatty acids level QTL 74.810.001blood free fatty acid amount (VT:0001553)plasma free fatty acids level (CMO:0000546)172840914773409147Rat
2302377Scl61Serum cholesterol level QTL 614.36blood HDL cholesterol amount (VT:0000184)serum high density lipoprotein cholesterol level (CMO:0000361)172738994653481766Rat
70157Niddm32Non-insulin dependent diabetes mellitus QTL 324.34blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)172245492450909196Rat
724549Niddm56Non-insulin dependent diabetes mellitus QTL 560.03blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)173199078476990784Rat
1354651Lmblg2Limb length QTL 26tibia length (VT:0004357)tibia length (CMO:0000450)17429913069599340Rat
1598871Memor5Memory QTL 55.3exploratory behavior trait (VT:0010471)total horizontal distance resulting from voluntary locomotion in an experimental apparatus (CMO:0001443)174054004180387013Rat
1354628Stl13Serum triglyceride level QTL 133.8blood triglyceride amount (VT:0002644)blood triglyceride level (CMO:0000118)172129303960781592Rat
1581512Cm55Cardiac mass QTL 552.80.05heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)172702794956836890Rat
10054088Scort28Serum corticosterone level QTL 282.040.0102blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)17452803849528038Rat
1354630Cm34Cardiac mass QTL 348.7heart left ventricle mass (VT:0007031)heart left ventricle wet weight (CMO:0000071)17429913069599340Rat
61394Bp8Blood pressure QTL 82.2arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)172308056759555013Rat
1559055Bp278Blood pressure QTL 2780.04arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)172365318468653184Rat
10450503Bp386Blood pressure QTL 3860.28arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)173136839162109574Rat
152025238Slep14Serum leptin concentration QTL 144.62blood leptin amount (VT:0005667)172418489079524188Rat
1354638Insul1Insulin level QTL 14.8blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)17429913069599340Rat
2313854Bp343Blood pressure QTL 3433.9life span trait (VT:0005372)age at time of death (CMO:0001193)173199078450909196Rat
2317054Aia12Adjuvant induced arthritis QTL 124.24joint integrity trait (VT:0010548)left rear ankle joint diameter (CMO:0002149)173828150983281509Rat
1354635Bp245Blood pressure QTL 2456arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)174207316069599340Rat
1331765Hrtrt15Heart rate QTL 154.094heart pumping trait (VT:2000009)heart rate (CMO:0000002)171533061355836425Rat
8552928Pigfal9Plasma insulin-like growth factor 1 level QTL 99blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)172840914773409147Rat
1300148Bp192Blood pressure QTL 1923.47arterial blood pressure trait (VT:2000000)blood pressure time series experimental set point of the baroreceptor response (CMO:0002593)173455084373951021Rat
2317060Aia26Adjuvant induced arthritis QTL 263.22joint integrity trait (VT:0010548)right rear ankle joint diameter (CMO:0002150)173828150983281509Rat
2303627Vencon8Ventilatory control QTL 80.001respiration trait (VT:0001943)tidal volume (CMO:0000222)17452803849528038Rat
12903980Cm120Cardiac mass QTL 1200.002heart right ventricle mass (VT:0007033)heart right ventricle weight to body weight ratio (CMO:0000914)172365318468653184Rat
12903981Am17Aortic mass QTL 170.001aorta mass (VT:0002845)aorta weight to aorta length to body weight ratio (CMO:0002722)172365318468653184Rat
4889955Bss93Bone structure and strength QTL 934.4tibia size trait (VT:0100001)tibia cortical bone volume to tibia total bone volume ratio (CMO:0001727)172702794960463643Rat
2303561Bw91Body weight QTL 912body mass (VT:0001259)body weight (CMO:0000012)17886846253868462Rat
12903982Kidm70Kidney mass QTL 700.001kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)172365318470974005Rat
12903978Cm118Cardiac mass QTL 1180.001heart mass (VT:0007028)heart wet weight to body weight ratio (CMO:0002408)172365318468653184Rat
2324621Coatc5Coat color QTL 5coat/hair pigmentation trait (VT:0010463)pigmented ventral coat/hair area to total ventral coat/hair area ratio (CMO:0001812)173136839173951021Rat
12903979Cm119Cardiac mass QTL 1190.001heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)172365318468653184Rat
1354619Bp242Blood pressure QTL 2426.3arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)172459934069599340Rat
1354596Bw32Body weight QTL 324.5body mass (VT:0001259)body weight (CMO:0000012)17429913060781592Rat
1354662Rf49Renal function QTL 492.9blood creatinine amount (VT:0005328)plasma creatinine level (CMO:0000537)17169599340Rat
152023740Bp406Blood pressure QTL 4066.06arterial blood pressure trait (VT:2000000)172393042179524188Rat
1354663Bvd5Brain ventricular dilatation QTL 53.510.001brain ventricle morphology trait (VT:0000822)hydrocephalus severity score (CMO:0001881)173199078481292925Rat
7488966Bp370Blood pressure QTL 3700.001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)172365318457246843Rat
1354658Spl8Serum phospholipid level QTL 83.8blood VLDL phospholipid amount (VT:0010507)blood very low density lipoprotein phospholipid level (CMO:0001571)17160781592Rat
152023737Bp405Blood pressure QTL 4055.06arterial blood pressure trait (VT:2000000)2393042179524188Rat
1354659Scl68Serum cholesterol level QTL 683.9blood VLDL cholesterol amount (VT:0005144)blood very low density lipoprotein cholesterol level (CMO:0000648)171578159260781592Rat
152023736Bp404Blood pressure QTL 4043.78arterial blood pressure trait (VT:2000000)172393042179524188Rat
724528Uae4Urinary albumin excretion QTL 44.90.0001urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)173583708569599340Rat


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
nervous system
renal system
reproductive system
respiratory system
9 11 49 113 91 90 59 25 59 6 218 97 93 45 60 31

Sequence


Ensembl Acc Id: ENSRNOT00000084976   ⟹   ENSRNOP00000073850
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1743,106,370 - 43,113,183 (-)Ensembl
Rnor_6.0 Ensembl1745,148,646 - 45,154,355 (-)Ensembl
RefSeq Acc Id: NM_001427827   ⟹   NP_001414756
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81747,800,586 - 47,808,833 (-)NCBI
Protein Sequences
Protein RefSeqs NP_001414756 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein EDL84551 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Acc Id: ENSRNOP00000073850   ⟸   ENSRNOT00000084976
RefSeq Acc Id: NP_001414756   ⟸   NM_001427827
Protein Domains
C2H2-type   SCAN box

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D3ZCK0-F1-model_v2 AlphaFold D3ZCK0 1-395 view protein structure

Transcriptome

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


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1309004 AgrOrtholog
BioCyc Gene G2FUF-9221 BioCyc
Ensembl Genes ENSRNOG00000051823 Ensembl
Gene3D-CATH Classic Zinc Finger UniProtKB/TrEMBL
  DNA breaking-rejoining enzymes UniProtKB/TrEMBL
InterPro C2H2-ZF_Transcription_Reg UniProtKB/TrEMBL
  SCAN_dom UniProtKB/TrEMBL
  SCAN_sf UniProtKB/TrEMBL
  Znf_C2H2_sf UniProtKB/TrEMBL
  Znf_C2H2_type UniProtKB/TrEMBL
NCBI Gene 291164 ENTREZGENE
PANTHER ODD-SKIPPED - RELATED UniProtKB/TrEMBL
  ZINC FINGER PROTEIN 208-LIKE UniProtKB/TrEMBL
Pfam SCAN UniProtKB/TrEMBL
  zf-C2H2 UniProtKB/TrEMBL
PhenoGen Zkscan4 PhenoGen
PROSITE SCAN_BOX UniProtKB/TrEMBL
  ZINC_FINGER_C2H2_1 UniProtKB/TrEMBL
  ZINC_FINGER_C2H2_2 UniProtKB/TrEMBL
RatGTEx ENSRNOG00000051823 RatGTEx
SMART SCAN UniProtKB/TrEMBL
  ZnF_C2H2 UniProtKB/TrEMBL
Superfamily-SCOP beta-beta-alpha zinc fingers UniProtKB/TrEMBL
  Retrovirus capsid dimerization domain-like UniProtKB/TrEMBL
UniProt A6KN83_RAT UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2013-05-24 Zkscan4  zinc finger with KRAB and SCAN domains 4  LOC682216  similar to zinc finger protein 307  Data merged from RGD:1585773 1643240 APPROVED
2012-11-27 Zkscan4  zinc finger with KRAB and SCAN domains 4  Zfp307  zinc finger protein 307  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2011-07-19 Zfp307  zinc finger protein 307  Znf307  zinc finger protein 307  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-05-28 LOC682216  similar to zinc finger protein 307   LOC682216  similar to zinc finger protein 307 (predicted)  'predicted' is removed from gene name 2292626 APPROVED
2008-04-30 Znf307  zinc finger protein 307   Znf307_predicted  zinc finger protein 307 (predicted)  'predicted' is removed 2292626 APPROVED
2006-11-19 LOC682216  similar to zinc finger protein 307 (predicted)      Symbol and Name status set to provisional 70820 PROVISIONAL
2005-01-12 Znf307_predicted  zinc finger protein 307 (predicted)      Symbol and Name status set to approved 70820 APPROVED