Kctd4 (potassium channel tetramerization domain containing 4) - Rat Genome Database

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Gene: Kctd4 (potassium channel tetramerization domain containing 4) Rattus norvegicus
Analyze
Symbol: Kctd4
Name: potassium channel tetramerization domain containing 4
RGD ID: 1594637
Description: Predicted to be involved in protein homooligomerization. Orthologous to human KCTD4 (potassium channel tetramerization domain containing 4); INTERACTS WITH 2,2',4,4'-Tetrabromodiphenyl ether; 2,3,7,8-Tetrachlorodibenzofuran; 6-propyl-2-thiouracil.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: BTB/POZ domain-containing protein KCTD4; LOC691835; potassium channel tetramerisation domain containing 4; similar to Potassium channel tetramerisation domain-containing protein 4
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
GRCr81557,675,024 - 57,686,816 (+)NCBIGRCr8
mRatBN7.21551,263,664 - 51,278,030 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1551,274,295 - 51,277,499 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1555,432,568 - 55,435,772 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01556,550,889 - 56,554,093 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01553,373,392 - 53,376,592 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01558,006,288 - 58,021,166 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1558,016,238 - 58,019,442 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01561,711,478 - 61,723,368 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41556,872,713 - 56,875,694 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera1550,900,784 - 50,903,988 (+)NCBICelera
Cytogenetic Map15q11NCBI
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

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions

Genomics

Comparative Map Data
Kctd4
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81557,675,024 - 57,686,816 (+)NCBIGRCr8
mRatBN7.21551,263,664 - 51,278,030 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1551,274,295 - 51,277,499 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1555,432,568 - 55,435,772 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01556,550,889 - 56,554,093 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01553,373,392 - 53,376,592 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01558,006,288 - 58,021,166 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1558,016,238 - 58,019,442 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01561,711,478 - 61,723,368 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41556,872,713 - 56,875,694 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera1550,900,784 - 50,903,988 (+)NCBICelera
Cytogenetic Map15q11NCBI
KCTD4
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381345,192,853 - 45,201,045 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1345,192,853 - 45,201,045 (-)EnsemblGRCh38hg38GRCh38
GRCh371345,766,988 - 45,775,180 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361344,664,988 - 44,673,175 (-)NCBINCBI36Build 36hg18NCBI36
Build 341344,664,989 - 44,666,852NCBI
Celera1326,823,093 - 26,831,280 (-)NCBICelera
Cytogenetic Map13q14.12-q14.13NCBI
HuRef1326,568,652 - 26,576,838 (-)NCBIHuRef
CHM1_11345,734,533 - 45,742,720 (-)NCBICHM1_1
T2T-CHM13v2.01344,412,904 - 44,421,096 (-)NCBIT2T-CHM13v2.0
Kctd4
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391476,192,443 - 76,202,657 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1476,192,449 - 76,203,646 (+)EnsemblGRCm39 Ensembl
GRCm381475,955,003 - 75,965,217 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1475,955,009 - 75,966,206 (+)EnsemblGRCm38mm10GRCm38
MGSCv371476,354,810 - 76,365,024 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361474,689,158 - 74,699,372 (+)NCBIMGSCv36mm8
Celera1473,456,212 - 73,466,277 (+)NCBICelera
Cytogenetic Map14D3NCBI
cM Map1440.3NCBI
Kctd4
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049555182,977,055 - 2,987,676 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049555182,977,055 - 2,987,676 (-)NCBIChiLan1.0ChiLan1.0
KCTD4
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21444,713,419 - 44,721,382 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11335,775,417 - 35,780,282 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01326,361,483 - 26,369,687 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.13197,702,121 - 197,710,303 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl3197,708,590 - 197,709,369 (+)Ensemblpanpan1.1panPan2
KCTD4
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1225,820,833 - 5,832,672 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl225,830,982 - 5,831,758 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha225,801,957 - 5,821,225 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0225,930,440 - 5,949,756 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl225,948,316 - 5,949,092 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1225,712,604 - 5,731,890 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0225,775,746 - 5,795,218 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0225,781,268 - 5,800,524 (+)NCBIUU_Cfam_GSD_1.0
Kctd4
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024404945155,398,279 - 155,400,084 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049367911,319,688 - 1,320,467 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049367911,318,756 - 1,320,794 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
KCTD4
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1122,056,743 - 22,076,408 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11122,056,743 - 22,076,501 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
KCTD4
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1323,285,993 - 23,347,315 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl323,286,681 - 23,287,460 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366605720,774,921 - 20,776,818 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Kctd4
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046247489,777,890 - 9,786,966 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046247489,777,747 - 9,787,130 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Kctd4
76 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:841
Count of miRNA genes:293
Interacting mature miRNAs:376
Transcripts:ENSRNOT00000075786
Prediction methods:Microtar, Miranda, 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 (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
724545Niddm54Non-insulin dependent diabetes mellitus QTL 540.02blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)155079449473699215Rat

Markers in Region
RH144249  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21551,277,868 - 51,277,968 (+)MAPPERmRatBN7.2
Rnor_6.01558,019,812 - 58,019,911NCBIRnor6.0
Rnor_5.01561,722,724 - 61,722,823UniSTSRnor5.0
RGSC_v3.41556,876,064 - 56,876,163UniSTSRGSC3.4
Celera1550,904,358 - 50,904,457UniSTS
RH 3.4 Map15601.1UniSTS
Cytogenetic Map15q11UniSTS


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 31
Low 8 24 8 16 8 8 8 37 8 9 9 8
Below cutoff 1 17 1 1 3 1 2 6 4 17 2

Sequence


RefSeq Acc Id: ENSRNOT00000075786   ⟹   ENSRNOP00000065668
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1551,274,295 - 51,277,499 (+)Ensembl
Rnor_6.0 Ensembl1558,016,238 - 58,019,442 (+)Ensembl
RefSeq Acc Id: NM_001109650   ⟹   NP_001103120
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81557,683,612 - 57,686,816 (+)NCBI
mRatBN7.21551,274,295 - 51,277,499 (+)NCBI
Rnor_6.01558,016,238 - 58,019,442 (+)NCBI
Rnor_5.01561,711,478 - 61,723,368 (+)NCBI
RGSC_v3.41556,872,713 - 56,875,694 (+)RGD
Celera1550,900,784 - 50,903,988 (+)RGD
Sequence:
RefSeq Acc Id: XM_006252330   ⟹   XP_006252392
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81557,675,024 - 57,685,204 (+)NCBI
mRatBN7.21551,263,664 - 51,278,030 (+)NCBI
Rnor_6.01558,006,288 - 58,021,166 (+)NCBI
Rnor_5.01561,711,478 - 61,723,368 (+)NCBI
Sequence:
Protein Sequences
Protein RefSeqs NP_001103120 (Get FASTA)   NCBI Sequence Viewer  
  XP_006252392 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein EDM02308 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000065668
  ENSRNOP00000065668.1
RefSeq Acc Id: NP_001103120   ⟸   NM_001109650
- UniProtKB: D3ZXL9 (UniProtKB/TrEMBL),   A6HTU4 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006252392   ⟸   XM_006252330
- Peptide Label: isoform X1
- UniProtKB: D3ZXL9 (UniProtKB/TrEMBL),   A6HTU4 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000065668   ⟸   ENSRNOT00000075786
Protein Domains
BTB

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D3ZXL9-F1-model_v2 AlphaFold D3ZXL9 1-259 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:1594637 AgrOrtholog
BioCyc Gene G2FUF-13095 BioCyc
Ensembl Genes ENSRNOG00000050996 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000075786 ENTREZGENE
  ENSRNOT00000075786.2 UniProtKB/TrEMBL
InterPro BTB/POZ-like UniProtKB/TrEMBL
  BTB/POZ_fold UniProtKB/TrEMBL
  KCTD4_C UniProtKB/TrEMBL
  T1-type_BTB UniProtKB/TrEMBL
KEGG Report rno:691835 UniProtKB/TrEMBL
NCBI Gene 691835 ENTREZGENE
PANTHER BTB/POZ DOMAIN-CONTAINING PROTEIN KCTD4 UniProtKB/TrEMBL
  POTASSIUM CHANNEL TETRAMERIZATION DOMAIN-CONTAINING UniProtKB/TrEMBL
Pfam K_tetra UniProtKB/TrEMBL
  KCTD4_C UniProtKB/TrEMBL
PhenoGen Kctd4 PhenoGen
RatGTEx ENSRNOG00000050996 RatGTEx
SMART BTB UniProtKB/TrEMBL
Superfamily-SCOP BTB/POZ_fold UniProtKB/TrEMBL
UniProt A6HTU4 ENTREZGENE, UniProtKB/TrEMBL
  D3ZXL9 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2013-07-09 Kctd4  potassium channel tetramerization domain containing 4  Kctd4  potassium channel tetramerisation domain containing 4  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-03-06 Kctd4  potassium channel tetramerisation domain containing 4  LOC691835  similar to Potassium channel tetramerisation domain-containing protein 4  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-01-09 LOC691835  similar to Potassium channel tetramerisation domain-containing protein 4  LOC684884  similar to Potassium channel tetramerisation domain-containing protein 4  Data merged from RGD:1585514 1643240 APPROVED
2006-11-20 LOC691835  similar to Potassium channel tetramerisation domain-containing protein 4      Symbol and Name status set to provisional 70820 PROVISIONAL
2006-11-19 LOC684884  similar to Potassium channel tetramerisation domain-containing protein 4      Symbol and Name status set to provisional 70820 PROVISIONAL