NEK4 (NIMA related kinase 4) - Rat Genome Database

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Gene: NEK4 (NIMA related kinase 4) Homo sapiens
Analyze
Symbol: NEK4
Name: NIMA related kinase 4
RGD ID: 1312757
HGNC Page HGNC:11399
Description: Predicted to enable manganese ion binding activity and protein serine/threonine kinase activity. Involved in several processes, including DNA damage response; positive regulation of DNA-templated transcription; and regulation of cellular senescence. Located in cytosol.
Type: protein-coding
RefSeq Status: REVIEWED
Previously known as: MGC33171; never in mitosis A-related kinase 4; NIMA (never in mitosis gene a)-related kinase 4; NIMA-related kinase 4; nimA-related protein kinase 4; NRK2; pp12301; serine/threonine kinase 2; serine/threonine protein kinase-2; serine/threonine-protein kinase 2; serine/threonine-protein kinase Nek4; serine/threonine-protein kinase Nek4 variant 2; serine/threonine-protein kinase NRK2; STK2
RGD Orthologs
Mouse
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Related Pseudogenes: NEK4P1   NEK4P2   NEK4P3  
Allele / Splice: See ClinVar data
Latest Assembly: GRCh38 - Human Genome Assembly GRCh38
Position:
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38352,708,444 - 52,770,940 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl352,708,444 - 52,770,946 (-)EnsemblGRCh38hg38GRCh38
GRCh37352,742,460 - 52,804,956 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36352,719,840 - 52,779,991 (-)NCBINCBI36Build 36hg18NCBI36
Build 34352,719,841 - 52,779,979NCBI
Celera352,723,506 - 52,783,686 (-)NCBICelera
Cytogenetic Map3p21.1NCBI
HuRef352,806,323 - 52,866,636 (-)NCBIHuRef
CHM1_1352,696,967 - 52,757,147 (-)NCBICHM1_1
T2T-CHM13v2.0352,741,355 - 52,803,847 (-)NCBIT2T-CHM13v2.0
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
cell projection  (IEA)
ciliary basal body  (IEA,ISO)
ciliary plasm  (IEA,ISO)
ciliary rootlet  (IEA,ISO)
ciliary transition zone  (IEA,ISO)
cilium  (IEA)
cytoplasm  (IBA,IEA,ISS)
cytosol  (IDA)

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. GOAs Human GO annotations GOA_HUMAN data from the GO Consortium
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
Additional References at PubMed
PMID:601959   PMID:8208544   PMID:9552363   PMID:12477932   PMID:14702039   PMID:16344560   PMID:18029348   PMID:19416921   PMID:20103636   PMID:20734064   PMID:20800603   PMID:21685204  
PMID:21873635   PMID:21926972   PMID:22851694   PMID:23974872   PMID:24255178   PMID:25056061   PMID:25798074   PMID:26186194   PMID:26638075   PMID:26673895   PMID:27173435   PMID:27602754  
PMID:27894351   PMID:28514442   PMID:29507755   PMID:30247800   PMID:31091453   PMID:31182584   PMID:31743747   PMID:32707033   PMID:33961781   PMID:34079125   PMID:34672954   PMID:35271311  
PMID:35696571   PMID:36931259  


Genomics

Comparative Map Data
NEK4
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38352,708,444 - 52,770,940 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl352,708,444 - 52,770,946 (-)EnsemblGRCh38hg38GRCh38
GRCh37352,742,460 - 52,804,956 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36352,719,840 - 52,779,991 (-)NCBINCBI36Build 36hg18NCBI36
Build 34352,719,841 - 52,779,979NCBI
Celera352,723,506 - 52,783,686 (-)NCBICelera
Cytogenetic Map3p21.1NCBI
HuRef352,806,323 - 52,866,636 (-)NCBIHuRef
CHM1_1352,696,967 - 52,757,147 (-)NCBICHM1_1
T2T-CHM13v2.0352,741,355 - 52,803,847 (-)NCBIT2T-CHM13v2.0
Nek4
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391430,673,334 - 30,710,778 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1430,673,334 - 30,710,778 (+)EnsemblGRCm39 Ensembl
GRCm381430,951,377 - 30,988,821 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1430,951,377 - 30,988,821 (+)EnsemblGRCm38mm10GRCm38
MGSCv371431,764,674 - 31,800,587 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361429,780,497 - 29,816,410 (+)NCBIMGSCv36mm8
Celera1427,208,772 - 27,245,215 (+)NCBICelera
Cytogenetic Map14BNCBI
cM Map1419.09NCBI
Nek4
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8166,151,292 - 6,200,280 (+)NCBIGRCr8
mRatBN7.2166,144,900 - 6,185,376 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl166,144,959 - 6,188,932 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx166,156,495 - 6,197,248 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0167,301,957 - 7,342,710 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0166,163,758 - 6,204,437 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0167,035,002 - 7,080,272 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl167,035,068 - 7,075,554 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0166,961,142 - 7,009,810 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4166,386,850 - 6,422,465 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1166,386,924 - 6,422,453 (+)NCBI
Celera169,003,955 - 9,044,746 (-)NCBICelera
Cytogenetic Map16p16NCBI
Nek4
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554302,696,493 - 2,733,392 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049554302,695,674 - 2,733,204 (-)NCBIChiLan1.0ChiLan1.0
NEK4
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2252,704,488 - 52,765,747 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1352,707,159 - 52,770,529 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0352,649,280 - 52,712,645 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1353,877,257 - 53,938,520 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl353,878,760 - 53,938,520 (-)Ensemblpanpan1.1panPan2
NEK4
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12037,056,852 - 37,091,977 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2037,056,754 - 37,092,686 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2037,039,095 - 37,073,987 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.02037,407,881 - 37,442,744 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2037,407,885 - 37,440,616 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.12036,771,452 - 36,806,315 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02037,179,859 - 37,214,937 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02037,457,447 - 37,492,395 (+)NCBIUU_Cfam_GSD_1.0
Nek4
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024405118170,361,288 - 170,389,366 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049364733,499,754 - 3,528,329 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049364733,499,858 - 3,527,918 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
NEK4
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1334,841,366 - 34,896,565 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11334,844,972 - 34,909,028 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21338,065,216 - 38,081,875 (-)NCBISscrofa10.2Sscrofa10.2susScr3
NEK4
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12214,083,583 - 14,152,775 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl2214,121,073 - 14,152,547 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_023666041152,745,104 - 152,816,427 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Nek4
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046248224,453,379 - 4,502,579 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046248224,454,040 - 4,500,031 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in NEK4
51 total Variants

Clinical Variants
Name Type Condition(s) Position(s) Clinical significance
GRCh38/hg38 3p21.31-14.3(chr3:49461000-55314500)x1 copy number loss See cases [RCV000051511] Chr3:49461000..55314500 [GRCh38]
Chr3:49498433..55348528 [GRCh37]
Chr3:49473437..55323568 [NCBI36]
Chr3:3p21.31-14.3		 pathogenic
NM_001193533.1(NEK4):c.925G>A (p.Gly309Arg) single nucleotide variant Malignant melanoma [RCV000066144] Chr3:52752108 [GRCh38]
Chr3:52786124 [GRCh37]
Chr3:52761164 [NCBI36]
Chr3:3p21.1		 not provided
NM_003157.6(NEK4):c.2017dup (p.Ile673fs) duplication Ciliopathy [RCV000256411] Chr3:52741486..52741487 [GRCh38]
Chr3:52775502..52775503 [GRCh37]
Chr3:3p21.1		 likely pathogenic
GRCh38/hg38 3p21.2-14.3(chr3:51394434-55064449)x1 copy number loss See cases [RCV000143631] Chr3:51394434..55064449 [GRCh38]
Chr3:51431865..55098476 [GRCh37]
Chr3:51406905..55073516 [NCBI36]
Chr3:3p21.2-14.3		 likely pathogenic
GRCh37/hg19 3p21.2-14.2(chr3:52086599-59689209)x1 copy number loss See cases [RCV000239886] Chr3:52086599..59689209 [GRCh37]
Chr3:3p21.2-14.2		 pathogenic
NM_003157.6(NEK4):c.293A>G (p.Gln98Arg) single nucleotide variant Inborn genetic diseases [RCV003252479] Chr3:52768405 [GRCh38]
Chr3:52802421 [GRCh37]
Chr3:3p21.1		 uncertain significance
NM_003157.6(NEK4):c.799T>G (p.Phe267Val) single nucleotide variant Inborn genetic diseases [RCV003280898] Chr3:52763492 [GRCh38]
Chr3:52797508 [GRCh37]
Chr3:3p21.1		 uncertain significance
NM_003157.6(NEK4):c.633G>T (p.Met211Ile) single nucleotide variant Inborn genetic diseases [RCV003257286] Chr3:52765920 [GRCh38]
Chr3:52799936 [GRCh37]
Chr3:3p21.1		 uncertain significance
GRCh37/hg19 3p26.3-q29(chr3:61892-197851986) copy number gain See cases [RCV000512358] Chr3:61892..197851986 [GRCh37]
Chr3:3p26.3-q29		 pathogenic
NM_003157.6(NEK4):c.701T>C (p.Leu234Pro) single nucleotide variant Inborn genetic diseases [RCV003304236] Chr3:52763590 [GRCh38]
Chr3:52797606 [GRCh37]
Chr3:3p21.1		 uncertain significance
GRCh37/hg19 3p26.3-q29(chr3:61892-197851986)x3 copy number gain See cases [RCV000511055] Chr3:61892..197851986 [GRCh37]
Chr3:3p26.3-q29		 pathogenic
NM_003157.6(NEK4):c.2054C>T (p.Thr685Ile) single nucleotide variant Inborn genetic diseases [RCV003304574] Chr3:52741450 [GRCh38]
Chr3:52775466 [GRCh37]
Chr3:3p21.1		 uncertain significance
NM_003157.6(NEK4):c.433A>G (p.Ile145Val) single nucleotide variant Inborn genetic diseases [RCV003267493] Chr3:52766303 [GRCh38]
Chr3:52800319 [GRCh37]
Chr3:3p21.1		 uncertain significance
GRCh37/hg19 3p26.3-q29(chr3:61495-197838262)x3 copy number gain not provided [RCV000742138] Chr3:61495..197838262 [GRCh37]
Chr3:3p26.3-q29		 pathogenic
GRCh37/hg19 3p26.3-q29(chr3:60174-197948027)x3 copy number gain not provided [RCV000742133] Chr3:60174..197948027 [GRCh37]
Chr3:3p26.3-q29		 pathogenic
GRCh37/hg19 3p21.31-21.1(chr3:45153770-53878616) copy number gain not provided [RCV000767704] Chr3:45153770..53878616 [GRCh37]
Chr3:3p21.31-21.1		 pathogenic
GRCh37/hg19 3p21.2-21.1(chr3:52195134-52869037)x1 copy number loss not provided [RCV000848455] Chr3:52195134..52869037 [GRCh37]
Chr3:3p21.2-21.1		 pathogenic
NM_003157.6(NEK4):c.1105A>G (p.Ile369Val) single nucleotide variant Inborn genetic diseases [RCV003245957] Chr3:52752195 [GRCh38]
Chr3:52786211 [GRCh37]
Chr3:3p21.1		 uncertain significance
NM_003157.6(NEK4):c.2385A>G (p.Leu795=) single nucleotide variant not provided [RCV000904778] Chr3:52737634 [GRCh38]
Chr3:52771650 [GRCh37]
Chr3:3p21.1		 likely benign
GRCh37/hg19 3p21.1(chr3:52780509-53418869)x3 copy number gain not provided [RCV002473850] Chr3:52780509..53418869 [GRCh37]
Chr3:3p21.1		 uncertain significance
GRCh37/hg19 3p21.2-21.1(chr3:51247306-53069942)x3 copy number gain not provided [RCV001005434] Chr3:51247306..53069942 [GRCh37]
Chr3:3p21.2-21.1		 uncertain significance
NC_000003.11:g.(?_52018081)_(53845433_?)del deletion not provided [RCV003105312] Chr3:52018081..53845433 [GRCh37]
Chr3:3p21.2-21.1		 uncertain significance
NM_003157.6(NEK4):c.239A>G (p.Tyr80Cys) single nucleotide variant Inborn genetic diseases [RCV003277042] Chr3:52768459 [GRCh38]
Chr3:52802475 [GRCh37]
Chr3:3p21.1		 uncertain significance
NC_000003.11:g.(?_52109903)_(53164416_?)del deletion RFT1-congenital disorder of glycosylation [RCV003122979] Chr3:52109903..53164416 [GRCh37]
Chr3:3p21.2-21.1		 uncertain significance
GRCh37/hg19 3p21.1(chr3:52783975-53418893)x3 copy number gain not provided [RCV002473863] Chr3:52783975..53418893 [GRCh37]
Chr3:3p21.1		 uncertain significance
NM_003157.6(NEK4):c.2125G>A (p.Val709Ile) single nucleotide variant Inborn genetic diseases [RCV002778012] Chr3:52739603 [GRCh38]
Chr3:52773619 [GRCh37]
Chr3:3p21.1		 uncertain significance
NM_003157.6(NEK4):c.2045G>C (p.Ser682Thr) single nucleotide variant Inborn genetic diseases [RCV002734208] Chr3:52741459 [GRCh38]
Chr3:52775475 [GRCh37]
Chr3:3p21.1		 uncertain significance
NM_003157.6(NEK4):c.386A>G (p.His129Arg) single nucleotide variant Inborn genetic diseases [RCV002777319] Chr3:52766350 [GRCh38]
Chr3:52800366 [GRCh37]
Chr3:3p21.1		 uncertain significance
NM_003157.6(NEK4):c.628G>A (p.Asp210Asn) single nucleotide variant Inborn genetic diseases [RCV002822222] Chr3:52765925 [GRCh38]
Chr3:52799941 [GRCh37]
Chr3:3p21.1		 uncertain significance
NM_003157.6(NEK4):c.2150A>G (p.Lys717Arg) single nucleotide variant Inborn genetic diseases [RCV002693274] Chr3:52739578 [GRCh38]
Chr3:52773594 [GRCh37]
Chr3:3p21.1		 uncertain significance
NM_003157.6(NEK4):c.1975C>T (p.Arg659Trp) single nucleotide variant Inborn genetic diseases [RCV002976998] Chr3:52743381 [GRCh38]
Chr3:52777397 [GRCh37]
Chr3:3p21.1		 likely benign
NM_003157.6(NEK4):c.806T>C (p.Leu269Ser) single nucleotide variant Inborn genetic diseases [RCV002782018] Chr3:52763485 [GRCh38]
Chr3:52797501 [GRCh37]
Chr3:3p21.1		 uncertain significance
NM_003157.6(NEK4):c.1559A>G (p.Asp520Gly) single nucleotide variant Inborn genetic diseases [RCV002782216] Chr3:52746852 [GRCh38]
Chr3:52780868 [GRCh37]
Chr3:3p21.1		 likely benign
NM_003157.6(NEK4):c.540C>G (p.Asn180Lys) single nucleotide variant Inborn genetic diseases [RCV002925102] Chr3:52766196 [GRCh38]
Chr3:52800212 [GRCh37]
Chr3:3p21.1		 uncertain significance
NM_003157.6(NEK4):c.16T>C (p.Tyr6His) single nucleotide variant Inborn genetic diseases [RCV002645420] Chr3:52770731 [GRCh38]
Chr3:52804747 [GRCh37]
Chr3:3p21.1		 uncertain significance
NM_003157.6(NEK4):c.1334A>G (p.Gln445Arg) single nucleotide variant Inborn genetic diseases [RCV002709195] Chr3:52751966 [GRCh38]
Chr3:52785982 [GRCh37]
Chr3:3p21.1		 uncertain significance
NM_003157.6(NEK4):c.77G>A (p.Arg26Gln) single nucleotide variant Inborn genetic diseases [RCV002743736] Chr3:52770670 [GRCh38]
Chr3:52804686 [GRCh37]
Chr3:3p21.1		 uncertain significance
NM_003157.6(NEK4):c.1769G>A (p.Arg590His) single nucleotide variant Inborn genetic diseases [RCV002665394] Chr3:52746119 [GRCh38]
Chr3:52780135 [GRCh37]
Chr3:3p21.1		 uncertain significance
NM_003157.6(NEK4):c.2438G>A (p.Arg813His) single nucleotide variant Inborn genetic diseases [RCV002985907] Chr3:52711865 [GRCh38]
Chr3:52745881 [GRCh37]
Chr3:3p21.1		 likely benign
NM_003157.6(NEK4):c.1609C>T (p.Arg537Trp) single nucleotide variant Inborn genetic diseases [RCV003202265] Chr3:52746802 [GRCh38]
Chr3:52780818 [GRCh37]
Chr3:3p21.1		 uncertain significance
NM_003157.6(NEK4):c.2249G>A (p.Gly750Glu) single nucleotide variant Inborn genetic diseases [RCV003188977] Chr3:52739479 [GRCh38]
Chr3:52773495 [GRCh37]
Chr3:3p21.1		 uncertain significance
NM_003157.6(NEK4):c.1828G>C (p.Asp610His) single nucleotide variant Inborn genetic diseases [RCV003260940] Chr3:52744305 [GRCh38]
Chr3:52778321 [GRCh37]
Chr3:3p21.1		 uncertain significance
NM_003157.6(NEK4):c.1748A>G (p.Gln583Arg) single nucleotide variant Inborn genetic diseases [RCV003351412] Chr3:52746140 [GRCh38]
Chr3:52780156 [GRCh37]
Chr3:3p21.1		 uncertain significance
NM_003157.6(NEK4):c.1959G>T (p.Gln653His) single nucleotide variant Inborn genetic diseases [RCV003383627] Chr3:52743397 [GRCh38]
Chr3:52777413 [GRCh37]
Chr3:3p21.1		 uncertain significance
GRCh37/hg19 3p21.2-14.2(chr3:51149374-59265315)x1 copy number loss not specified [RCV003986409] Chr3:51149374..59265315 [GRCh37]
Chr3:3p21.2-14.2		 pathogenic
NM_003157.6(NEK4):c.460C>T (p.Arg154Ter) single nucleotide variant not provided [RCV003331553] Chr3:52766276 [GRCh38]
Chr3:52800292 [GRCh37]
Chr3:3p21.1		 not provided
NM_003157.6(NEK4):c.718A>C (p.Thr240Pro) single nucleotide variant Inborn genetic diseases [RCV003338319] Chr3:52763573 [GRCh38]
Chr3:52797589 [GRCh37]
Chr3:3p21.1		 uncertain significance
NM_003157.6(NEK4):c.1930G>C (p.Gly644Arg) single nucleotide variant Inborn genetic diseases [RCV003379162] Chr3:52743426 [GRCh38]
Chr3:52777442 [GRCh37]
Chr3:3p21.1		 uncertain significance
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:914
Count of miRNA genes:615
Interacting mature miRNAs:673
Transcripts:ENST00000233027, ENST00000383721, ENST00000461689, ENST00000487068, ENST00000493199, ENST00000496822, ENST00000535191
Prediction methods:Microtar, 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.

Markers in Region
RH102821  
Human AssemblyChrPosition (strand)SourceJBrowse
GRCh37352,750,424 - 52,750,581UniSTSGRCh37
Build 36352,725,464 - 52,725,621RGDNCBI36
Celera352,729,134 - 52,729,291RGD
Cytogenetic Map3p21.1UniSTS
HuRef352,811,947 - 52,812,104UniSTS
GeneMap99-GB4 RH Map3163.92UniSTS
D3S3128  
Human AssemblyChrPosition (strand)SourceJBrowse
GRCh37352,775,481 - 52,775,716UniSTSGRCh37
Build 36352,750,521 - 52,750,756RGDNCBI36
Celera352,754,201 - 52,754,436RGD
Cytogenetic Map3p21.1UniSTS
HuRef352,837,015 - 52,837,250UniSTS
SHGC-77006  
Human AssemblyChrPosition (strand)SourceJBrowse
GRCh37352,745,691 - 52,745,792UniSTSGRCh37
Build 36352,720,731 - 52,720,832RGDNCBI36
Celera352,724,401 - 52,724,502RGD
Cytogenetic Map3p21.1UniSTS
HuRef352,807,218 - 52,807,319UniSTS
TNG Radiation Hybrid Map333020.0UniSTS
GeneMap99-GB4 RH Map3164.44UniSTS
Whitehead-RH Map3214.1UniSTS


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 sensory system visual system adipose tissue appendage entire extraembryonic component pharyngeal arch
High
Medium 637 720 1118 173 681 128 1524 330 1816 201 1146 1121 59 1 323 1054 3 2
Low 1802 2206 608 451 1225 337 2832 1847 1918 218 314 492 116 881 1734 3
Below cutoff 65 45 20

Sequence

Nucleotide Sequences
RefSeq Transcripts NG_053026 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_001193533 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_001348412 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_001348413 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_001348414 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_003157 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_011534039 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_011534040 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017007085 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017007086 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_047448772 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_047448774 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_054347637 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_054347638 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_054347639 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_054347640 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_054347641 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_054347642 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AC006254 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AC104446 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AI860526 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK022015 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK294165 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK312420 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC015515 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC063044 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH471055 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CP068275 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  DB073127 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  EF560744 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  KJ592714 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  KT585189 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  L20321 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENST00000233027   ⟹   ENSP00000233027
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl352,708,444 - 52,770,940 (-)Ensembl
RefSeq Acc Id: ENST00000383721   ⟹   ENSP00000373227
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl352,737,498 - 52,770,939 (-)Ensembl
RefSeq Acc Id: ENST00000461689   ⟹   ENSP00000419666
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl352,737,586 - 52,770,856 (-)Ensembl
RefSeq Acc Id: ENST00000487068   ⟹   ENSP00000420231
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl352,746,150 - 52,752,070 (-)Ensembl
RefSeq Acc Id: ENST00000493199
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl352,743,228 - 52,746,114 (-)Ensembl
RefSeq Acc Id: ENST00000496822   ⟹   ENSP00000417119
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl352,766,316 - 52,770,946 (-)Ensembl
RefSeq Acc Id: ENST00000535191   ⟹   ENSP00000437703
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl352,711,777 - 52,770,939 (-)Ensembl
RefSeq Acc Id: NM_001193533   ⟹   NP_001180462
RefSeq Status: REVIEWED
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38352,708,444 - 52,770,940 (-)NCBI
GRCh37352,744,796 - 52,804,965 (-)RGD
Celera352,723,506 - 52,783,686 (-)RGD
HuRef352,806,323 - 52,866,636 (-)ENTREZGENE
CHM1_1352,696,967 - 52,757,147 (-)NCBI
T2T-CHM13v2.0352,741,355 - 52,803,847 (-)NCBI
Sequence:
RefSeq Acc Id: NM_001348412   ⟹   NP_001335341
RefSeq Status: REVIEWED
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38352,708,444 - 52,770,940 (-)NCBI
T2T-CHM13v2.0352,741,355 - 52,803,847 (-)NCBI
Sequence:
RefSeq Acc Id: NM_001348413   ⟹   NP_001335342
RefSeq Status: REVIEWED
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38352,737,494 - 52,770,940 (-)NCBI
T2T-CHM13v2.0352,770,404 - 52,803,847 (-)NCBI
Sequence:
RefSeq Acc Id: NM_001348414   ⟹   NP_001335343
RefSeq Status: REVIEWED
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38352,708,444 - 52,770,940 (-)NCBI
T2T-CHM13v2.0352,741,355 - 52,803,847 (-)NCBI
Sequence:
RefSeq Acc Id: NM_003157   ⟹   NP_003148
RefSeq Status: REVIEWED
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38352,708,444 - 52,770,940 (-)NCBI
GRCh37352,744,796 - 52,804,965 (-)RGD
Build 36352,719,840 - 52,779,991 (-)NCBI Archive
Celera352,723,506 - 52,783,686 (-)RGD
HuRef352,806,323 - 52,866,636 (-)ENTREZGENE
CHM1_1352,696,967 - 52,757,147 (-)NCBI
T2T-CHM13v2.0352,741,355 - 52,803,847 (-)NCBI
Sequence:
RefSeq Acc Id: XM_011534039   ⟹   XP_011532341
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38352,730,165 - 52,770,940 (-)NCBI
Sequence:
RefSeq Acc Id: XM_011534040   ⟹   XP_011532342
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38352,741,741 - 52,770,940 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017007085   ⟹   XP_016862574
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38352,731,033 - 52,770,940 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017007086   ⟹   XP_016862575
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38352,731,033 - 52,770,940 (-)NCBI
Sequence:
RefSeq Acc Id: XM_047448772   ⟹   XP_047304728
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38352,729,606 - 52,770,940 (-)NCBI
RefSeq Acc Id: XM_047448774   ⟹   XP_047304730
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38352,741,741 - 52,770,940 (-)NCBI
RefSeq Acc Id: XM_054347637   ⟹   XP_054203612
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
T2T-CHM13v2.0352,763,495 - 52,803,847 (-)NCBI
RefSeq Acc Id: XM_054347638   ⟹   XP_054203613
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
T2T-CHM13v2.0352,763,075 - 52,803,847 (-)NCBI
RefSeq Acc Id: XM_054347639   ⟹   XP_054203614
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
T2T-CHM13v2.0352,763,496 - 52,803,847 (-)NCBI
RefSeq Acc Id: XM_054347640   ⟹   XP_054203615
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
T2T-CHM13v2.0352,762,516 - 52,803,847 (-)NCBI
RefSeq Acc Id: XM_054347641   ⟹   XP_054203616
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
T2T-CHM13v2.0352,774,653 - 52,803,847 (-)NCBI
RefSeq Acc Id: XM_054347642   ⟹   XP_054203617
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
T2T-CHM13v2.0352,774,653 - 52,803,847 (-)NCBI
Protein Sequences
Protein RefSeqs NP_001180462 (Get FASTA)   NCBI Sequence Viewer  
  NP_001335341 (Get FASTA)   NCBI Sequence Viewer  
  NP_001335342 (Get FASTA)   NCBI Sequence Viewer  
  NP_001335343 (Get FASTA)   NCBI Sequence Viewer  
  NP_003148 (Get FASTA)   NCBI Sequence Viewer  
  XP_011532341 (Get FASTA)   NCBI Sequence Viewer  
  XP_011532342 (Get FASTA)   NCBI Sequence Viewer  
  XP_016862574 (Get FASTA)   NCBI Sequence Viewer  
  XP_016862575 (Get FASTA)   NCBI Sequence Viewer  
  XP_047304728 (Get FASTA)   NCBI Sequence Viewer  
  XP_047304730 (Get FASTA)   NCBI Sequence Viewer  
  XP_054203612 (Get FASTA)   NCBI Sequence Viewer  
  XP_054203613 (Get FASTA)   NCBI Sequence Viewer  
  XP_054203614 (Get FASTA)   NCBI Sequence Viewer  
  XP_054203615 (Get FASTA)   NCBI Sequence Viewer  
  XP_054203616 (Get FASTA)   NCBI Sequence Viewer  
  XP_054203617 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAA36658 (Get FASTA)   NCBI Sequence Viewer  
  AAH15515 (Get FASTA)   NCBI Sequence Viewer  
  AAH63044 (Get FASTA)   NCBI Sequence Viewer  
  ABQ59054 (Get FASTA)   NCBI Sequence Viewer  
  AHZ86932 (Get FASTA)   NCBI Sequence Viewer  
  BAG35330 (Get FASTA)   NCBI Sequence Viewer  
  BAH11686 (Get FASTA)   NCBI Sequence Viewer  
  EAW65258 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSP00000233027
  ENSP00000233027.5
  ENSP00000373227
  ENSP00000373227.4
  ENSP00000417119.1
  ENSP00000419666
  ENSP00000419666.1
  ENSP00000420231.1
  ENSP00000437703
  ENSP00000437703.1
GenBank Protein P51957 (Get FASTA)   NCBI Sequence Viewer  
Reference Protein Sequences
RefSeq Acc Id: NP_001180462   ⟸   NM_001193533
- Peptide Label: isoform 2
- UniProtKB: E7EX48 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: NP_003148   ⟸   NM_003157
- Peptide Label: isoform 1
- UniProtKB: B7Z200 (UniProtKB/Swiss-Prot),   B2R633 (UniProtKB/Swiss-Prot),   A5YM70 (UniProtKB/Swiss-Prot),   Q6P576 (UniProtKB/Swiss-Prot),   P51957 (UniProtKB/Swiss-Prot),   A0A059V7J1 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_011532341   ⟸   XM_011534039
- Peptide Label: isoform X2
- UniProtKB: A0A059V7J1 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_011532342   ⟸   XM_011534040
- Peptide Label: isoform X5
- UniProtKB: E7EX48 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_016862574   ⟸   XM_017007085
- Peptide Label: isoform X1
- UniProtKB: A0A059V7J1 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_016862575   ⟸   XM_017007086
- Peptide Label: isoform X3
- UniProtKB: A0A059V7J1 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: NP_001335343   ⟸   NM_001348414
- Peptide Label: isoform 5
- UniProtKB: E7EX48 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: NP_001335341   ⟸   NM_001348412
- Peptide Label: isoform 3
- UniProtKB: A0A059V7J1 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: NP_001335342   ⟸   NM_001348413
- Peptide Label: isoform 4
- UniProtKB: A0A059V7J1 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSP00000437703   ⟸   ENST00000535191
RefSeq Acc Id: ENSP00000417119   ⟸   ENST00000496822
RefSeq Acc Id: ENSP00000233027   ⟸   ENST00000233027
RefSeq Acc Id: ENSP00000420231   ⟸   ENST00000487068
RefSeq Acc Id: ENSP00000419666   ⟸   ENST00000461689
RefSeq Acc Id: ENSP00000373227   ⟸   ENST00000383721
RefSeq Acc Id: XP_047304728   ⟸   XM_047448772
- Peptide Label: isoform X4
RefSeq Acc Id: XP_047304730   ⟸   XM_047448774
- Peptide Label: isoform X6
RefSeq Acc Id: XP_054203615   ⟸   XM_054347640
- Peptide Label: isoform X4
RefSeq Acc Id: XP_054203613   ⟸   XM_054347638
- Peptide Label: isoform X2
RefSeq Acc Id: XP_054203612   ⟸   XM_054347637
- Peptide Label: isoform X1
RefSeq Acc Id: XP_054203614   ⟸   XM_054347639
- Peptide Label: isoform X3
RefSeq Acc Id: XP_054203617   ⟸   XM_054347642
- Peptide Label: isoform X6
RefSeq Acc Id: XP_054203616   ⟸   XM_054347641
- Peptide Label: isoform X5
Protein Domains
Protein kinase

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-P51957-F1-model_v2 AlphaFold P51957 1-841 view protein structure

Promoters
RGD ID:6864684
Promoter ID:EPDNEW_H5507
Type:initiation region
Name:NEK4_1
Description:NIMA related kinase 4
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Alternative Promoters:null; see alsoEPDNEW_H5509  
Experiment Methods:Single-end sequencing.
Position:
Human AssemblyChrPosition (strand)Source
GRCh38352,770,940 - 52,771,000EPDNEW
RGD ID:6864688
Promoter ID:EPDNEW_H5509
Type:initiation region
Name:NEK4_2
Description:NIMA related kinase 4
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Alternative Promoters:null; see alsoEPDNEW_H5507  
Experiment Methods:Single-end sequencing.; Paired-end sequencing.
Position:
Human AssemblyChrPosition (strand)Source
GRCh38352,778,381 - 52,778,441EPDNEW
RGD ID:6801339
Promoter ID:HG_KWN:45252
Type:CpG-Island
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:CD4+TCell,   CD4+TCell_12Hour,   CD4+TCell_2Hour,   HeLa_S3,   Jurkat,   K562,   Lymphoblastoid,   NB4
Transcripts:ENST00000233027,   UC003DFR.2
Position:
Human AssemblyChrPosition (strand)Source
Build 36352,779,909 - 52,780,409 (-)MPROMDB

Additional Information

Database Acc Id Source(s)
AGR Gene HGNC:11399 AgrOrtholog
COSMIC NEK4 COSMIC
Ensembl Genes ENSG00000114904 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Ensembl Transcript ENST00000233027 ENTREZGENE
  ENST00000233027.10 UniProtKB/Swiss-Prot
  ENST00000383721 ENTREZGENE
  ENST00000383721.8 UniProtKB/Swiss-Prot
  ENST00000461689 ENTREZGENE
  ENST00000461689.5 UniProtKB/TrEMBL
  ENST00000487068.1 UniProtKB/TrEMBL
  ENST00000496822.1 UniProtKB/TrEMBL
  ENST00000535191 ENTREZGENE
  ENST00000535191.5 UniProtKB/Swiss-Prot
Gene3D-CATH Transferase(Phosphotransferase) domain 1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
GTEx ENSG00000114904 GTEx
HGNC ID HGNC:11399 ENTREZGENE
Human Proteome Map NEK4 Human Proteome Map
InterPro Kinase-like_dom_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Prot_kinase_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Protein_kinase_ATP_BS UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Ser/Thr_kinase_AS UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report hsa:6787 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
NCBI Gene 6787 ENTREZGENE
OMIM 601959 OMIM
PANTHER CAMK FAMILY PROTEIN KINASE UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PROTEIN GVQW1-RELATED UniProtKB/TrEMBL
  SECRETED PROTEIN UniProtKB/TrEMBL
  SERINE/THREONINE PROTEIN KINASE UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam Pkinase UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PharmGKB PA31548 PharmGKB
PRINTS F138DOMAIN UniProtKB/TrEMBL
PROSITE PROTEIN_KINASE_ATP UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PROTEIN_KINASE_DOM UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PROTEIN_KINASE_ST UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
SMART S_TKc UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF56112 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt A0A059V7J1 ENTREZGENE, UniProtKB/TrEMBL
  A5YM70 ENTREZGENE
  B2R633 ENTREZGENE
  B7Z200 ENTREZGENE
  E7EX48 ENTREZGENE, UniProtKB/TrEMBL
  F8WAX1_HUMAN UniProtKB/TrEMBL
  H7C5M0_HUMAN UniProtKB/TrEMBL
  NEK4_HUMAN UniProtKB/Swiss-Prot, ENTREZGENE
  Q05DF6_HUMAN UniProtKB/TrEMBL
  Q6P576 ENTREZGENE
UniProt Secondary A5YM70 UniProtKB/Swiss-Prot
  B2R633 UniProtKB/Swiss-Prot
  B7Z200 UniProtKB/Swiss-Prot
  Q6P576 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-01-19 NEK4  NIMA related kinase 4    NIMA-related kinase 4  Symbol and/or name change 5135510 APPROVED
2012-11-20 NEK4  NIMA-related kinase 4    NIMA (never in mitosis gene a)-related kinase 4  Symbol and/or name change 5135510 APPROVED