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) Canis lupus familiaris
Analyze
Symbol: ZKSCAN4
Name: zinc finger with KRAB and SCAN domains 4
RGD ID: 12302381
Description: ENCODES a protein that exhibits identical protein binding (ortholog); INVOLVED IN regulation of transcription by RNA polymerase II (inferred); ASSOCIATED WITH genetic disease (ortholog); megacolon (ortholog); schizophrenia (ortholog); FOUND IN nucleoplasm (ortholog)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: zinc finger protein with KRAB and SCAN domains 4
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Squirrel
Pig
Green Monkey
Alliance Genes
More Info more info ...
Latest Assembly: CanFam3.1 - Dog CanFam3.1 Assembly
Position:
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
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  (IEA)
nucleoplasm  (ISO)
nucleus  (IEA)

Molecular Function

References
Additional References at PubMed
PMID:30032202  


Genomics

Comparative Map Data
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
(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
(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
(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
(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
155 total Variants

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 reproductive system respiratory system adipose tissue
High
Medium 2 1 1
Low 5 5 20 6 6 6 6 6 11 8 9 6
Below cutoff

Sequence


RefSeq Acc Id: XM_003434203   ⟹   XP_003434251
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.13525,381,935 - 25,389,116 (-)NCBI
Dog10K_Boxer_Tasha3525,240,000 - 25,247,506 (-)NCBI
Sequence:
RefSeq Acc Id: XM_038446641   ⟹   XP_038302569
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.03525,679,900 - 25,687,410 (-)NCBI
RefSeq Acc Id: XM_038520762   ⟹   XP_038376690
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UMICH_Zoey_3.13525,344,749 - 25,352,253 (-)NCBI
RefSeq Acc Id: XM_038584444   ⟹   XP_038440372
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UU_Cfam_GSD_1.03526,866,173 - 26,873,685 (-)NCBI
RefSeq Acc Id: XM_038648849   ⟹   XP_038504777
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UNSW_CanFamBas_1.03525,397,766 - 25,405,288 (-)NCBI
RefSeq Acc Id: XP_003434251   ⟸   XM_003434203
- UniProtKB: A0A8C0P1M4 (UniProtKB/TrEMBL),   A0A8P0PHP9 (UniProtKB/TrEMBL),   A0A8C0P679 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_038376690   ⟸   XM_038520762
RefSeq Acc Id: XP_038504777   ⟸   XM_038648849
RefSeq Acc Id: XP_038302569   ⟸   XM_038446641
- UniProtKB: A0A8I3RZG2 (UniProtKB/TrEMBL),   A0A8C0P679 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038440372   ⟸   XM_038584444
- UniProtKB: A0A8P0SFD2 (UniProtKB/TrEMBL)
Protein Domains
C2H2-type   SCAN box


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSCAFG00000024969 UniProtKB/TrEMBL
  ENSCAFG00000054522 UniProtKB/TrEMBL
  ENSCAFG00030021615 UniProtKB/TrEMBL
  ENSCAFG00030021749 UniProtKB/TrEMBL
  ENSCAFG00040009871 UniProtKB/TrEMBL
  ENSCAFG00845016718 ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSCAFT00000016330.5 UniProtKB/TrEMBL
  ENSCAFT00000102795.1 UniProtKB/TrEMBL
  ENSCAFT00030039642.1 UniProtKB/TrEMBL
  ENSCAFT00030039880.1 UniProtKB/TrEMBL
  ENSCAFT00040018263.1 UniProtKB/TrEMBL
  ENSCAFT00845029615 ENTREZGENE
  ENSCAFT00845029615.1 UniProtKB/TrEMBL
Gene3D-CATH 1.10.4020.10 UniProtKB/TrEMBL
  Classic Zinc Finger UniProtKB/TrEMBL
InterPro SCAN_dom UniProtKB/TrEMBL
  SCAN_sf UniProtKB/TrEMBL
  Znf_C2H2_sf UniProtKB/TrEMBL
  Znf_C2H2_type UniProtKB/TrEMBL
KEGG Report cfa:100682684 UniProtKB/TrEMBL
NCBI Gene ZKSCAN4 ENTREZGENE
PANTHER SIMILAR TO CASEIN KINASE 1, GAMMA 3 ISOFORM 2 UniProtKB/TrEMBL
  TRANSCRIPTIONAL REPRESSOR CTCFL-RELATED UniProtKB/TrEMBL
Pfam SCAN UniProtKB/TrEMBL
  zf-C2H2 UniProtKB/TrEMBL
PROSITE SCAN_BOX UniProtKB/TrEMBL
  ZINC_FINGER_C2H2_1 UniProtKB/TrEMBL
  ZINC_FINGER_C2H2_2 UniProtKB/TrEMBL
SMART SCAN UniProtKB/TrEMBL
  ZnF_C2H2 UniProtKB/TrEMBL
Superfamily-SCOP Retrovirus capsid dimerization domain-like UniProtKB/TrEMBL
  SSF57667 UniProtKB/TrEMBL
UniProt A0A8C0P1M4 ENTREZGENE, UniProtKB/TrEMBL
  A0A8C0P679 ENTREZGENE, UniProtKB/TrEMBL
  A0A8I3RZG2 ENTREZGENE, UniProtKB/TrEMBL
  A0A8P0PHP9 ENTREZGENE
  A0A8P0SFD2 ENTREZGENE, UniProtKB/TrEMBL
UniProt Secondary A0A8P0PHP9 UniProtKB/TrEMBL