Klhl4 (kelch-like family member 4) - Rat Genome Database

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Gene: Klhl4 (kelch-like family member 4) Rattus norvegicus
Analyze
Symbol: Klhl4
Name: kelch-like family member 4
RGD ID: 1565441
Description: Predicted to be located in centriolar satellite. Orthologous to human KLHL4 (kelch like family member 4); INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; 2,3,7,8-Tetrachlorodibenzofuran; 3-chloropropane-1,2-diol.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: kelch-like 4; kelch-like 4 (Drosophila); kelch-like protein 4; LOC317196; RGD1565441; similar to KIAA1687 protein
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
GRCr8X83,626,047 - 83,916,328 (+)NCBIGRCr8
mRatBN7.2X79,429,193 - 79,719,482 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 EnsemblX79,622,113 - 79,719,480 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_UtxX81,310,098 - 81,407,006 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0X84,708,360 - 84,805,945 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0X82,296,515 - 82,393,646 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0X86,125,929 - 86,229,565 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 EnsemblX86,126,157 - 86,229,563 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0X86,066,906 - 86,171,225 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4X103,218,938 - 103,317,748 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
CeleraX80,890,575 - 80,987,712 (+)NCBICelera
Cytogenetic MapXq31NCBI
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

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. GOA pipeline RGD automated data pipeline
2. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
3. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions

Genomics

Comparative Map Data
Klhl4
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8X83,626,047 - 83,916,328 (+)NCBIGRCr8
mRatBN7.2X79,429,193 - 79,719,482 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 EnsemblX79,622,113 - 79,719,480 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_UtxX81,310,098 - 81,407,006 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0X84,708,360 - 84,805,945 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0X82,296,515 - 82,393,646 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0X86,125,929 - 86,229,565 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 EnsemblX86,126,157 - 86,229,563 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0X86,066,906 - 86,171,225 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4X103,218,938 - 103,317,748 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
CeleraX80,890,575 - 80,987,712 (+)NCBICelera
Cytogenetic MapXq31NCBI
KLHL4
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38X87,517,802 - 87,670,050 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 EnsemblX87,517,409 - 87,670,050 (+)EnsemblGRCh38hg38GRCh38
GRCh37X86,772,805 - 86,925,050 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36X86,659,465 - 86,811,706 (+)NCBINCBI36Build 36hg18NCBI36
Build 34X86,578,961 - 86,730,741NCBI
CeleraX87,012,392 - 87,164,729 (+)NCBICelera
Cytogenetic MapXq21.31NCBI
HuRefX80,353,756 - 80,506,308 (+)NCBIHuRef
CHM1_1X86,665,377 - 86,817,732 (+)NCBICHM1_1
T2T-CHM13v2.0X85,944,797 - 86,097,065 (+)NCBIT2T-CHM13v2.0
Klhl4
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39X113,384,030 - 113,470,826 (+)NCBIGRCm39GRCm39mm39
GRCm39 EnsemblX113,384,030 - 113,470,526 (+)EnsemblGRCm39 Ensembl
GRCm38X114,474,333 - 114,561,129 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 EnsemblX114,474,333 - 114,560,829 (+)EnsemblGRCm38mm10GRCm38
MGSCv37X111,588,129 - 111,674,307 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36X110,591,464 - 110,677,642 (+)NCBIMGSCv36mm8
CeleraX101,283,043 - 101,355,844 (+)NCBICelera
Cytogenetic MapXE1NCBI
cM MapX49.47NCBI
Klhl4
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049555251,849,413 - 1,965,441 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049555251,849,428 - 1,963,168 (+)NCBIChiLan1.0ChiLan1.0
KLHL4
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2X86,985,286 - 87,136,205 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1X86,988,893 - 87,139,812 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0X76,575,811 - 76,726,687 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1X86,678,423 - 86,828,738 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 EnsemblX86,678,164 - 86,829,346 (+)Ensemblpanpan1.1panPan2
KLHL4
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1X67,949,674 - 68,111,260 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 EnsemblX67,949,034 - 68,109,486 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_TashaX58,721,143 - 58,882,528 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0X69,291,043 - 69,450,378 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 EnsemblX69,291,089 - 69,448,604 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1X66,926,923 - 67,088,348 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0X68,569,225 - 68,730,643 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0X68,163,017 - 68,324,360 (+)NCBIUU_Cfam_GSD_1.0
Klhl4
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2X76,323,006 - 76,422,124 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_00493649911,235,788 - 11,334,958 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_00493649911,235,844 - 11,335,678 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
KLHL4
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 EnsemblX70,334,774 - 70,435,109 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1X70,334,755 - 70,436,299 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2X80,884,832 - 81,030,921 (+)NCBISscrofa10.2Sscrofa10.2susScr3
KLHL4
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1X76,157,121 - 76,316,371 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 EnsemblX76,157,130 - 76,314,932 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_0236660674,434,150 - 4,594,245 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Klhl4
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_004624852493,040 - 629,663 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_004624852493,062 - 629,787 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Klhl4
1443 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:602
Count of miRNA genes:287
Interacting mature miRNAs:362
Transcripts:ENSRNOT00000006992
Prediction methods:Microtar, Miranda, Pita, Pita,Microtar
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
61430Cia18Collagen induced arthritis QTL 183.1joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)X14843113120568734Rat
1598837Memor13Memory QTL 133.2exploratory behavior trait (VT:0010471)difference between time of physical contact/close proximity of test subject and social stimulus during sample phase and test phase (CMO:0002678)X41052407146860749Rat
738035Stresp1Stress response QTL 14.960.000011stress-related behavior trait (VT:0010451)defensive burying - copingX41304447112935181Rat
61431Cia19Collagen induced arthritis QTL 194.4joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)X65612192120568734Rat
724551Glom1Glomerulus QTL 12.80.0004kidney glomerulus morphology trait (VT:0005325)count of superficial glomeruli not directly contacting the kidney surface (CMO:0001002)X75294106120294106Rat

Markers in Region
RH144205  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2X79,718,870 - 79,719,035 (+)MAPPERmRatBN7.2
Rnor_6.0X86,228,956 - 86,229,120NCBIRnor6.0
Rnor_5.0X86,170,616 - 86,170,780UniSTSRnor5.0
RGSC_v3.4X103,317,139 - 103,317,303UniSTSRGSC3.4
CeleraX80,987,103 - 80,987,267UniSTS
RH 3.4 MapX749.71UniSTS
Cytogenetic MapXq32UniSTS


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 10 4 4 4 13 10 11
Low 2 33 43 28 18 28 8 9 61 25 30 11 8
Below cutoff 1 10 9 1 9 1

Sequence


RefSeq Acc Id: ENSRNOT00000006992   ⟹   ENSRNOP00000006992
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 EnsemblX79,622,113 - 79,719,480 (+)Ensembl
Rnor_6.0 EnsemblX86,126,157 - 86,229,563 (+)Ensembl
RefSeq Acc Id: NM_001108244   ⟹   NP_001101714
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8X83,819,178 - 83,916,328 (+)NCBI
mRatBN7.2X79,622,324 - 79,719,480 (+)NCBI
Rnor_6.0X86,126,346 - 86,229,565 (+)NCBI
Rnor_5.0X86,066,906 - 86,171,225 (+)NCBI
RGSC_v3.4X103,218,938 - 103,317,748 (+)RGD
CeleraX80,890,575 - 80,987,712 (+)RGD
Sequence:
RefSeq Acc Id: XM_006257199   ⟹   XP_006257261
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8X83,818,654 - 83,916,328 (+)NCBI
mRatBN7.2X79,621,805 - 79,719,482 (+)NCBI
Rnor_6.0X86,125,929 - 86,229,565 (+)NCBI
Rnor_5.0X86,066,906 - 86,171,225 (+)NCBI
Sequence:
RefSeq Acc Id: XM_039099723   ⟹   XP_038955651
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8X83,626,047 - 83,916,328 (+)NCBI
mRatBN7.2X79,429,193 - 79,719,482 (+)NCBI
RefSeq Acc Id: XM_039099724   ⟹   XP_038955652
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8X83,819,486 - 83,916,328 (+)NCBI
mRatBN7.2X79,622,633 - 79,719,482 (+)NCBI
RefSeq Acc Id: XM_063280013   ⟹   XP_063136083
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8X83,626,047 - 83,916,328 (+)NCBI
RefSeq Acc Id: NP_001101714   ⟸   NM_001108244
- UniProtKB: D3ZHI3 (UniProtKB/TrEMBL),   A6IVB0 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006257261   ⟸   XM_006257199
- Peptide Label: isoform X1
- UniProtKB: D3ZHI3 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000006992   ⟸   ENSRNOT00000006992
RefSeq Acc Id: XP_038955651   ⟸   XM_039099723
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038955652   ⟸   XM_039099724
- Peptide Label: isoform X4
RefSeq Acc Id: XP_063136083   ⟸   XM_063280013
- Peptide Label: isoform X3
Protein Domains
BTB

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D3ZHI3-F1-model_v2 AlphaFold D3ZHI3 1-711 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:1565441 AgrOrtholog
BioCyc Gene G2FUF-1810 BioCyc
Ensembl Genes ENSRNOG00000005215 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000006992 ENTREZGENE
  ENSRNOT00000006992.7 UniProtKB/TrEMBL
Gene3D-CATH 1.25.40.420 UniProtKB/TrEMBL
  2.120.10.80 UniProtKB/TrEMBL
InterPro BACK UniProtKB/TrEMBL
  BTB/POZ-like UniProtKB/TrEMBL
  BTB/POZ_fold UniProtKB/TrEMBL
  Kelch-typ_b-propeller UniProtKB/TrEMBL
  Kelch_1 UniProtKB/TrEMBL
KEGG Report rno:317196 UniProtKB/TrEMBL
NCBI Gene 317196 ENTREZGENE
PANTHER KELCH-LIKE PROTEIN DIABLO UniProtKB/TrEMBL
  LD33804P UniProtKB/TrEMBL
Pfam BACK UniProtKB/TrEMBL
  BTB UniProtKB/TrEMBL
  Kelch_1 UniProtKB/TrEMBL
PhenoGen Klhl4 PhenoGen
PRINTS KELCHREPEAT UniProtKB/TrEMBL
PROSITE BTB UniProtKB/TrEMBL
RatGTEx ENSRNOG00000005215 RatGTEx
SMART BACK UniProtKB/TrEMBL
  BTB UniProtKB/TrEMBL
  Kelch UniProtKB/TrEMBL
Superfamily-SCOP BTB/POZ_fold UniProtKB/TrEMBL
  SSF117281 UniProtKB/TrEMBL
UniProt A6IVB0 ENTREZGENE, UniProtKB/TrEMBL
  D3ZHI3 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2013-02-06 Klhl4  kelch-like family member 4  Klhl4  kelch-like 4 (Drosophila)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-03-06 Klhl4  kelch-like 4 (Drosophila)  RGD1565441_predicted  similar to KIAA1687 protein (predicted)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2006-03-07 RGD1565441_predicted  similar to KIAA1687 protein (predicted)  LOC317196  similar to KIAA1687 protein  Symbol and Name status set to approved 1299863 APPROVED
2006-02-09 LOC317196  similar to KIAA1687 protein      Symbol and Name status set to provisional 70820 PROVISIONAL