Kcnf1 (potassium voltage-gated channel modifier subfamily F member 1) - 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 QTLs Strains Markers Genome Information Ontologies Cell Lines References Download Submit Data
OntoMate (Literature Search) JBrowse (Genome Browser) Synteny Browser (VCMap)  (beta) 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) Overgo Probe Designer
Aging & Age-Related Disease Cancer & Neoplastic Disease Cardiovascular Disease COVID-19 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 PhenoMiner (Quantitative Phenotypes) Expected Ranges (Quantitative Phenotype) PhenoMiner Term Comparison Hybrid Rat Diversity Panel Phenotypes GERRC (Gene Editing Rat Resource Center) 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 Poster Archive Nomenclature Guidelines Resource Links Laboratory Resources Employment Resources
Gene: Kcnf1 (potassium voltage-gated channel modifier subfamily F member 1) Rattus norvegicus
Analyze
Symbol: Kcnf1
Name: potassium voltage-gated channel modifier subfamily F member 1
RGD ID: 631414
Description: Predicted to enable voltage-gated potassium channel activity. Predicted to be involved in non-motile cilium assembly and potassium ion transmembrane transport. Predicted to be part of voltage-gated potassium channel complex. Predicted to be active in ciliary base. Orthologous to human KCNF1 (potassium voltage-gated channel modifier subfamily F member 1); INTERACTS WITH bisphenol A; bromobenzene; copper atom.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: Kh1; Kv5.1; potassium channel, voltage-gated modifier subfamily F, member 1; potassium voltage-gated channel subfamily F member 1; potassium voltage-gated channel, subfamily F, member 1
RGD Orthologs
Human
Mouse
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
mRatBN7.2639,962,301 - 39,964,979 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl639,962,307 - 39,964,979 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx640,289,685 - 40,292,363 (-)NCBIRnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.0640,604,381 - 40,607,059 (-)NCBIRnor_SHRSP
UTH_Rnor_WKY_Bbb_1.0640,037,630 - 40,040,308 (-)NCBIRnor_WKY
Rnor_6.0642,471,060 - 42,473,738 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl642,471,066 - 42,473,738 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0652,191,159 - 52,193,837 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4640,910,390 - 40,913,068 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1640,913,548 - 40,916,021 (-)NCBI
Celera639,263,866 - 39,266,544 (-)NCBICelera
Cytogenetic Map6q16NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. Distinct spatial and temporal expression patterns of K+ channel mRNAs from different subfamilies. Drewe JA, etal., J Neurosci 1992 Feb;12(2):538-48.
2. 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.
3. Rat ISS GO annotations from GOA human gene data--August 2006 GOA data from the GO Consortium
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

Genomics

Comparative Map Data
Kcnf1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2639,962,301 - 39,964,979 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl639,962,307 - 39,964,979 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx640,289,685 - 40,292,363 (-)NCBIRnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.0640,604,381 - 40,607,059 (-)NCBIRnor_SHRSP
UTH_Rnor_WKY_Bbb_1.0640,037,630 - 40,040,308 (-)NCBIRnor_WKY
Rnor_6.0642,471,060 - 42,473,738 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl642,471,066 - 42,473,738 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0652,191,159 - 52,193,837 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4640,910,390 - 40,913,068 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1640,913,548 - 40,916,021 (-)NCBI
Celera639,263,866 - 39,266,544 (-)NCBICelera
Cytogenetic Map6q16NCBI
KCNF1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38210,911,934 - 10,914,225 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p13 Ensembl210,911,934 - 10,914,225 (+)EnsemblGRCh38hg38GRCh38
GRCh37211,052,060 - 11,054,351 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36210,969,514 - 10,971,802 (+)NCBINCBI36Build 36hg18NCBI36
Build 34211,002,660 - 11,004,948NCBI
Celera210,967,196 - 10,969,484 (+)NCBICelera
Cytogenetic Map2p25.1NCBI
HuRef210,903,225 - 10,905,447 (+)NCBIHuRef
CHM1_1210,982,228 - 10,984,516 (+)NCBICHM1_1
T2T-CHM13v2.0210,941,696 - 10,943,987 (+)NCBIT2T-CHM13v2.0
Kcnf1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391217,222,101 - 17,226,551 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1217,222,101 - 17,226,889 (-)EnsemblGRCm39 Ensembl
GRCm381217,172,100 - 17,176,888 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1217,172,100 - 17,176,888 (-)EnsemblGRCm38mm10GRCm38
MGSCv371217,178,906 - 17,183,694 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361217,197,580 - 17,202,005 (-)NCBIMGSCv36mm8
Celera1217,493,636 - 17,498,423 (-)NCBICelera
Cytogenetic Map12A1.1NCBI
KCNF1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan12A115,610,622 - 115,612,547 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v02A10,906,060 - 10,908,818 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.12A11,058,115 - 11,061,078 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl2A11,055,090 - 11,060,758 (+)Ensemblpanpan1.1panPan2
KCNF1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1177,752,588 - 7,754,482 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl177,752,651 - 7,754,153 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha177,678,062 - 7,679,917 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0177,854,763 - 7,856,618 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl177,817,828 - 7,856,618 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1177,740,520 - 7,742,374 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0177,743,266 - 7,745,121 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0177,757,031 - 7,758,886 (+)NCBIUU_Cfam_GSD_1.0
Kcnf1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440629252,208,228 - 52,213,417 (+)NCBIHiC_Itri_2
SpeTri2.0NW_0049365326,963,912 - 6,968,463 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
KCNF1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl3125,664,365 - 125,666,656 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.13125,664,027 - 125,666,054 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.23134,494,122 - 134,495,965 (-)NCBISscrofa10.2Sscrofa10.2susScr3
KCNF1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11496,695,647 - 96,698,931 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1496,695,961 - 96,697,445 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366604515,586,797 - 15,590,329 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Kcnf1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046248654,648,711 - 4,653,179 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Kcnf1
12 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:50
Count of miRNA genes:47
Interacting mature miRNAs:50
Transcripts:ENSRNOT00000033327
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
7411603Foco13Food consumption QTL 135.50.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)6141223769Rat
8552962Pigfal16Plasma insulin-like growth factor 1 level QTL 169.4blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)6141223769Rat
7411542Bw127Body weight QTL 1275.50.001body mass (VT:0001259)body weight gain (CMO:0000420)6141223769Rat
9589129Insul24Insulin level QTL 2419.060.001blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)6141223769Rat
9589048Scfw3Subcutaneous fat weight QTL 34.570.001subcutaneous adipose mass (VT:1000472)abdominal subcutaneous fat pad weight (CMO:0002069)6141223769Rat
2293709Bss23Bone structure and strength QTL 235.180.0001femur morphology trait (VT:0000559)femur cross-sectional area (CMO:0001661)6142487980Rat
2293650Bss31Bone structure and strength QTL 315.050.0001femur strength trait (VT:0010010)femur midshaft polar moment of inertia (CMO:0001669)6142487980Rat
2293656Bss28Bone structure and strength QTL 286.790.0001femur morphology trait (VT:0000559)femur midshaft cortical cross-sectional area (CMO:0001663)6142487980Rat
7411584Foco4Food consumption QTL 44.30.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)6142838846Rat
738024Sach5Saccharine consumption QTL 53.90.00039consumption behavior trait (VT:0002069)saccharin intake volume to total fluid intake volume ratio (CMO:0001601)6143394190Rat
2301972Bp325Blood pressure QTL 3254.8arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)6172227641Rat
1300164Rf15Renal function QTL 153.12renal blood flow trait (VT:2000006)absolute change in renal blood flow rate (CMO:0001168)6507449754641141Rat
4145119Mcs25Mammary carcinoma susceptibility QTL 250.0001mammary gland integrity trait (VT:0010552)ratio of deaths to total study population during a period of time (CMO:0001023)610894415110548006Rat
1578665Bss16Bone structure and strength QTL 164.4femur morphology trait (VT:0000559)bone trabecular cross-sectional area (CMO:0002311)61173566972593685Rat
1578668Bmd14Bone mineral density QTL 143.8femur mineral mass (VT:0010011)total volumetric bone mineral density (CMO:0001728)61173566972593685Rat
10401812Kidm54Kidney mass QTL 54kidney mass (VT:0002707)both kidneys wet weight (CMO:0000085)61436878859368788Rat
10401800Kidm49Kidney mass QTL 49kidney mass (VT:0002707)both kidneys wet weight (CMO:0000085)61436878859368788Rat
1576309Emca7Estrogen-induced mammary cancer QTL 74mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)615107216107351382Rat
2292589Emca10Estrogen-induced mammary cancer QTL 100.048mammary gland integrity trait (VT:0010552)post-insult time to mammary tumor formation (CMO:0000345)61653614061536140Rat
1354664Slep2Serum leptin concentration QTL 24.49blood leptin amount (VT:0005667)serum leptin level (CMO:0000780)61653614071636405Rat
1641898Colcr4Colorectal carcinoma resistance QTL43.710.0007intestine integrity trait (VT:0010554)well differentiated malignant colorectal tumor surface area measurement (CMO:0002077)62033877762613667Rat
2293839Kiddil2Kidney dilation QTL 24.8kidney pelvis morphology trait (VT:0004194)hydronephrosis severity score (CMO:0001208)62086642281133036Rat
2293841Kiddil4Kidney dilation QTL 44.4kidney pelvis morphology trait (VT:0004194)hydronephrosis severity score (CMO:0001208)62086642281133036Rat
1331779Rf38Renal function QTL 382.876kidney blood vessel physiology trait (VT:0100012)absolute change in renal vascular resistance (CMO:0001900)63207442872227641Rat
634318Bw118Body weight QTL 1183.55abdominal fat pad mass (VT:1000711)abdominal fat pad weight (CMO:0000088)63330954957730294Rat
6893340Cm77Cardiac mass QTL 770.260.57heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)63330954981132889Rat
1300143Rf14Renal function QTL 142.92renal blood flow trait (VT:2000006)absolute change in renal blood flow rate (CMO:0001168)63443413777102317Rat
1354632Scl29Serum cholesterol level QTL 293.74blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)63509870971636405Rat
634307Bp141Blood pressure QTL 1414arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)63523041780230417Rat
70199Coreg1Compensatory renal growth QTL 111.8kidney mass (VT:0002707)compensatory renal growth score (CMO:0001894)63569161857730540Rat
9590290Uminl2Urine mineral level QTL 23.960.001urine mineral amount (VT:0015086)urine electrolyte level (CMO:0000593)63878398983783989Rat
9590306Scort18Serum corticosterone level QTL 182.880.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)63878398983783989Rat
9590140Scort4Serum corticosterone level QTL 414.490.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)63878398983783989Rat


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 25 4
Low 3 4 7 2 2 43 16 24 1 2
Below cutoff 20 17 11 6 11 5 8 6 10 17 10 5

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000033327   ⟹   ENSRNOP00000033496
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl639,962,307 - 39,964,979 (-)Ensembl
Rnor_6.0 Ensembl642,471,066 - 42,473,738 (-)Ensembl
RefSeq Acc Id: NM_001169104   ⟹   NP_001162575
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2639,962,301 - 39,964,979 (-)NCBI
Rnor_6.0642,471,060 - 42,473,738 (-)NCBI
Rnor_5.0652,191,159 - 52,193,837 (-)NCBI
RGSC_v3.4640,910,390 - 40,913,068 (-)RGD
Celera639,263,866 - 39,266,544 (-)RGD
Sequence:
Protein Sequences
Protein RefSeqs NP_001162575 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein EDM03146 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: NP_001162575   ⟸   NM_001169104
- UniProtKB: D4ADX7 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000033496   ⟸   ENSRNOT00000033327
Protein Domains
Ion transport   Potassium channel tetramerisation-type BTB

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D4ADX7-F1-model_v2 AlphaFold D4ADX7 1-505 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:631414 AgrOrtholog
BioCyc Gene G2FUF-38059 BioCyc
Ensembl Genes ENSRNOG00000024310 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000033496 ENTREZGENE
  ENSRNOP00000033496.4 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000033327 ENTREZGENE
  ENSRNOT00000033327.6 UniProtKB/TrEMBL
Gene3D-CATH 1.10.287.70 UniProtKB/TrEMBL
  1.20.120.350 UniProtKB/TrEMBL
InterPro BTB/POZ_fold UniProtKB/TrEMBL
  Ion_trans UniProtKB/TrEMBL
  K_chnl_volt-dep_Kv UniProtKB/TrEMBL
  K_chnl_volt-dep_Kv9 UniProtKB/TrEMBL
  K_chnl_volt-dep_Kv_tetra UniProtKB/TrEMBL
  Volt_channel_dom_sf UniProtKB/TrEMBL
KEGG Report rno:298908 UniProtKB/TrEMBL
NCBI Gene 298908 ENTREZGENE
PANTHER POTASSIUM VOLTAGE-GATED CHANNEL SUBFAMILY F MEMBER 1 UniProtKB/TrEMBL
  PTHR11537 UniProtKB/TrEMBL
Pfam Ion_trans UniProtKB/TrEMBL
  K_tetra UniProtKB/TrEMBL
PhenoGen Kcnf1 PhenoGen
PRINTS KCHANNEL UniProtKB/TrEMBL
  KV9CHANNEL UniProtKB/TrEMBL
  KVCHANNEL UniProtKB/TrEMBL
Superfamily-SCOP BTB/POZ_fold UniProtKB/TrEMBL
  Voltage-gated potassium channels UniProtKB/TrEMBL
UniProt D4ADX7 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-02-11 Kcnf1  potassium voltage-gated channel modifier subfamily F member 1  Kcnf1  potassium channel, voltage-gated modifier subfamily F, member 1  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2015-01-26 Kcnf1  potassium channel, voltage-gated modifier subfamily F, member 1  Kcnf1  potassium voltage-gated channel, subfamily F, member 1  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2004-02-11 Kcnf1  potassium voltage-gated channel, subfamily F, member 1      Symbol and Name status set to approved 625702 APPROVED

RGD Curation Notes
Note Type Note Reference
gene_expression predominantly expressed in the brain 633164