Kctd6 (potassium channel tetramerization domain containing 6) - Rat Genome Database

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Gene: Kctd6 (potassium channel tetramerization domain containing 6) Rattus norvegicus
Analyze
Symbol: Kctd6
Name: potassium channel tetramerization domain containing 6
RGD ID: 1308208
Description: Predicted to enable ankyrin binding activity; cullin family protein binding activity; and identical protein binding activity. Predicted to be involved in negative regulation of smoothened signaling pathway and ubiquitin-dependent protein catabolic process. Orthologous to human KCTD6 (potassium channel tetramerization domain containing 6); INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; 6-propyl-2-thiouracil; amitrole.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: BTB/POZ domain-containing protein KCTD6; LOC305792; potassium channel tetramerisation domain containing 6
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
GRCr81519,125,529 - 19,142,038 (-)NCBIGRCr8
mRatBN7.21516,695,297 - 16,712,460 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1516,695,297 - 16,698,699 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1518,871,344 - 18,874,761 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01519,829,796 - 19,833,213 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01518,084,692 - 18,088,109 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01518,484,607 - 18,493,188 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1518,484,510 - 18,493,366 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01522,452,635 - 22,467,577 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41518,680,992 - 18,684,394 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11518,681,031 - 18,688,114 (-)NCBI
Celera1516,655,715 - 16,659,117 (-)NCBICelera
Cytogenetic Map15p14NCBI
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. 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. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
3. GOA pipeline RGD automated data pipeline
4. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
5. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:12477932   PMID:21472142   PMID:22573887   PMID:25416956   PMID:27152988  


Genomics

Comparative Map Data
Kctd6
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81519,125,529 - 19,142,038 (-)NCBIGRCr8
mRatBN7.21516,695,297 - 16,712,460 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1516,695,297 - 16,698,699 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1518,871,344 - 18,874,761 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01519,829,796 - 19,833,213 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01518,084,692 - 18,088,109 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01518,484,607 - 18,493,188 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1518,484,510 - 18,493,366 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01522,452,635 - 22,467,577 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41518,680,992 - 18,684,394 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11518,681,031 - 18,688,114 (-)NCBI
Celera1516,655,715 - 16,659,117 (-)NCBICelera
Cytogenetic Map15p14NCBI
KCTD6
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38358,492,096 - 58,502,360 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl358,492,096 - 58,502,360 (+)EnsemblGRCh38hg38GRCh38
GRCh37358,477,823 - 58,488,087 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36358,459,132 - 58,463,119 (+)NCBINCBI36Build 36hg18NCBI36
Build 34358,459,131 - 58,463,119NCBI
Celera358,497,720 - 58,501,753 (+)NCBICelera
Cytogenetic Map3p14.3NCBI
HuRef358,573,833 - 58,584,678 (+)NCBIHuRef
CHM1_1358,428,033 - 58,438,297 (+)NCBICHM1_1
T2T-CHM13v2.0358,532,473 - 58,542,739 (+)NCBIT2T-CHM13v2.0
Kctd6
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391414,246,186 - 14,255,692 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1414,246,210 - 14,255,878 (-)EnsemblGRCm39 Ensembl
GRCm38148,214,081 - 8,223,587 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl148,214,140 - 8,223,563 (+)EnsemblGRCm38mm10GRCm38
MGSCv37149,046,662 - 9,056,084 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36147,007,896 - 7,017,317 (+)NCBIMGSCv36mm8
Celera143,837,320 - 3,846,548 (+)NCBICelera
Cytogenetic Map14A1NCBI
cM Map144.76NCBI
Kctd6
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554301,667,385 - 1,670,392 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049554301,667,385 - 1,670,203 (-)NCBIChiLan1.0ChiLan1.0
KCTD6
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2258,404,810 - 58,473,957 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1358,409,580 - 58,478,737 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0358,365,847 - 58,439,763 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1359,782,600 - 59,850,009 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl359,840,170 - 59,850,009 (+)Ensemblpanpan1.1panPan2
KCTD6
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12032,144,231 - 32,162,377 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2032,144,957 - 32,146,974 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2032,069,199 - 32,110,153 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.02032,411,814 - 32,452,691 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2032,411,841 - 32,452,873 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.12031,868,616 - 31,909,385 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02032,224,600 - 32,265,770 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02032,396,825 - 32,437,869 (-)NCBIUU_Cfam_GSD_1.0
Kctd6
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024405118169,389,046 - 169,399,023 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049364732,527,392 - 2,537,602 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049364732,527,624 - 2,537,596 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
KCTD6
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1340,167,717 - 40,219,838 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11340,210,497 - 40,220,091 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21344,216,631 - 44,229,343 (+)NCBISscrofa10.2Sscrofa10.2susScr3
KCTD6
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12219,793,593 - 19,803,316 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl2219,800,206 - 19,804,360 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_023666041147,018,089 - 147,030,552 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Kctd6
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046248225,524,595 - 5,533,860 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046248225,523,819 - 5,534,333 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Kctd6
67 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:61
Count of miRNA genes:55
Interacting mature miRNAs:59
Transcripts:ENSRNOT00000010303
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.


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1354657Despr13Despair related QTL 130.0022locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)15129912054Rat
8552920Pigfal8Plasma insulin-like growth factor 1 level QTL 83blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)15134723002Rat
8694361Abfw6Abdominal fat weight QTL 610.20.001visceral adipose mass (VT:0010063)abdominal fat pad weight to body weight ratio (CMO:0000095)15134723002Rat
9589149Insul29Insulin level QTL 299.060.001blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)15134723002Rat
731170Pur3Proteinuria QTL 32.30.0005urine protein amount (VT:0005160)urine protein excretion rate (CMO:0000759)15141686771Rat
1641887Alcrsp14Alcohol response QTL 14response to alcohol trait (VT:0010489)brain neurotensin receptor 1 density (CMO:0002068)15142356671Rat
2298549Neuinf12Neuroinflammation QTL 123.5nervous system integrity trait (VT:0010566)spinal cord beta-2 microglobulin mRNA level (CMO:0002125)15155302115Rat
10401805Kidm51Kidney mass QTL 51kidney mass (VT:0002707)both kidneys wet weight (CMO:0000085)1530632945306329Rat
1641913Colcr2Colorectal carcinoma resistance QTL 26.570.0197intestine integrity trait (VT:0010554)colorectal tumor number (CMO:0001794)15226636822711984Rat
1641913Colcr2Colorectal carcinoma resistance QTL 26.570.0197intestine integrity trait (VT:0010554)poorly differentiated malignant colorectal tumor number (CMO:0002076)15226636822711984Rat
738017Hcas7Hepatocarcinoma susceptibility QTL 72.91liver integrity trait (VT:0010547)liver nonremodeling tumorous lesion volume to total liver volume ratio (CMO:0001464)15226636846921453Rat
1582251Gluco24Glucose level QTL 243.20.0008blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)15553075650530756Rat
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
5685002Bss103Bone structure and strength QTL 1032.8tibia strength trait (VT:1000284)tibia total energy absorbed before break (CMO:0001736)151448116528469888Rat

Markers in Region
RH142368  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21516,695,379 - 16,695,578 (+)MAPPERmRatBN7.2
Rnor_6.01518,484,690 - 18,484,888NCBIRnor6.0
Rnor_5.01522,452,718 - 22,452,916UniSTSRnor5.0
RGSC_v3.41518,681,075 - 18,681,273UniSTSRGSC3.4
Celera1516,655,798 - 16,655,996UniSTS
RH 3.4 Map15136.6UniSTS
Cytogenetic Map15p14UniSTS


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 29 29 29 72 35 21 4
Low 3 43 28 12 19 12 8 11 2 20 7 8
Below cutoff

Sequence


RefSeq Acc Id: ENSRNOT00000010303   ⟹   ENSRNOP00000010303
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1516,695,297 - 16,698,699 (-)Ensembl
Rnor_6.0 Ensembl1518,484,510 - 18,493,366 (-)Ensembl
RefSeq Acc Id: NM_001107253   ⟹   NP_001100723
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81519,125,529 - 19,128,931 (-)NCBI
mRatBN7.21516,695,297 - 16,698,699 (-)NCBI
Rnor_6.01518,484,607 - 18,488,009 (-)NCBI
Rnor_5.01522,452,635 - 22,467,577 (-)NCBI
RGSC_v3.41518,680,992 - 18,684,394 (-)RGD
Celera1516,655,715 - 16,659,117 (-)RGD
Sequence:
RefSeq Acc Id: XM_006251763   ⟹   XP_006251825
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81519,125,534 - 19,133,389 (-)NCBI
mRatBN7.21516,695,302 - 16,703,771 (-)NCBI
Rnor_6.01518,484,612 - 18,493,188 (-)NCBI
Rnor_5.01522,452,635 - 22,467,577 (-)NCBI
Sequence:
RefSeq Acc Id: XM_039093245   ⟹   XP_038949173
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81519,125,534 - 19,134,393 (-)NCBI
mRatBN7.21516,695,302 - 16,704,162 (-)NCBI
RefSeq Acc Id: XM_039093246   ⟹   XP_038949174
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81519,125,534 - 19,142,038 (-)NCBI
mRatBN7.21516,695,302 - 16,712,191 (-)NCBI
RefSeq Acc Id: XM_039093249   ⟹   XP_038949177
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81519,125,534 - 19,132,466 (-)NCBI
mRatBN7.21516,695,302 - 16,703,771 (-)NCBI
RefSeq Acc Id: NP_001100723   ⟸   NM_001107253
- UniProtKB: G3V6Z2 (UniProtKB/TrEMBL),   A6K0B5 (UniProtKB/TrEMBL),   B0BNF4 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006251825   ⟸   XM_006251763
- Peptide Label: isoform X1
- UniProtKB: G3V6Z2 (UniProtKB/TrEMBL),   A6K0B5 (UniProtKB/TrEMBL),   B0BNF4 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000010303   ⟸   ENSRNOT00000010303
RefSeq Acc Id: XP_038949174   ⟸   XM_039093246
- Peptide Label: isoform X1
- UniProtKB: G3V6Z2 (UniProtKB/TrEMBL),   A6K0B5 (UniProtKB/TrEMBL),   B0BNF4 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038949173   ⟸   XM_039093245
- Peptide Label: isoform X1
- UniProtKB: G3V6Z2 (UniProtKB/TrEMBL),   A6K0B5 (UniProtKB/TrEMBL),   B0BNF4 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038949177   ⟸   XM_039093249
- Peptide Label: isoform X1
- UniProtKB: G3V6Z2 (UniProtKB/TrEMBL),   A6K0B5 (UniProtKB/TrEMBL),   B0BNF4 (UniProtKB/TrEMBL)
Protein Domains
BTB

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-G3V6Z2-F1-model_v2 AlphaFold G3V6Z2 1-237 view protein structure

Transcriptome

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

Promoters
RGD ID:13699588
Promoter ID:EPDNEW_R10111
Type:initiation region
Name:Kctd6_1
Description:potassium channel tetramerization domain containing 6
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_6.01518,493,456 - 18,493,516EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1308208 AgrOrtholog
BioCyc Gene G2FUF-14292 BioCyc
Ensembl Genes ENSRNOG00000007817 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000010303 ENTREZGENE
  ENSRNOT00000010303.6 UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7318329 IMAGE-MGC_LOAD
InterPro BTB/POZ-like UniProtKB/TrEMBL
  BTB/POZ_fold UniProtKB/TrEMBL
  K_chnl_volt-dep_Kv_tetra UniProtKB/TrEMBL
KEGG Report rno:305792 UniProtKB/TrEMBL
MGC_CLONE MGC:188198 IMAGE-MGC_LOAD
NCBI Gene 305792 ENTREZGENE
PANTHER BTB/POZ DOMAIN-CONTAINING PROTEIN KCTD6 UniProtKB/TrEMBL
  POTASSIUM CHANNEL TETRAMERIZATION DOMAIN-CONTAINING UniProtKB/TrEMBL
Pfam K_tetra UniProtKB/TrEMBL
PhenoGen Kctd6 PhenoGen
RatGTEx ENSRNOG00000007817 RatGTEx
SMART BTB UniProtKB/TrEMBL
Superfamily-SCOP BTB/POZ_fold UniProtKB/TrEMBL
UniProt A6K0B5 ENTREZGENE, UniProtKB/TrEMBL
  B0BNF4 ENTREZGENE, UniProtKB/TrEMBL
  G3V6Z2 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2013-07-09 Kctd6  potassium channel tetramerization domain containing 6  Kctd6  potassium channel tetramerisation domain containing 6  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-04-30 Kctd6  potassium channel tetramerisation domain containing 6   Kctd6_predicted  potassium channel tetramerisation domain containing 6 (predicted)  'predicted' is removed 2292626 APPROVED
2005-01-12 Kctd6_predicted  potassium channel tetramerisation domain containing 6 (predicted)      Symbol and Name status set to approved 70820 APPROVED