Nkap (NFKB activating protein) - Rat Genome Database

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Gene: Nkap (NFKB activating protein) Mus musculus
Analyze
Symbol: Nkap
Name: NFKB activating protein
RGD ID: 1557790
MGI Page MGI
Description: Enables chromatin DNA binding activity. Acts upstream of or within hemopoiesis; negative regulation of transcription by RNA polymerase II; and somatic stem cell population maintenance. Predicted to be located in cytosol and nucleoplasm. Predicted to be active in nucleus. Human ortholog(s) of this gene implicated in syndromic X-linked intellectual disability. Orthologous to human NKAP (NFKB activating protein).
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: 2610020O08Rik; AA987160; AI849147; AL024236; NF-kappa-B-activating protein; nuclear NF-kappaB activating protein
RGD Orthologs
Human
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: GRCm39 - Mouse Genome Assembly GRCm39
Position:
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39X36,390,416 - 36,414,399 (+)NCBIGRCm39GRCm39mm39
GRCm39 EnsemblX36,390,448 - 36,414,399 (+)EnsemblGRCm39 Ensembl
GRCm38X37,126,763 - 37,150,746 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 EnsemblX37,126,795 - 37,150,746 (+)EnsemblGRCm38mm10GRCm38
MGSCv37X34,666,758 - 34,690,741 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36X33,558,261 - 33,582,191 (+)NCBIMGSCv36mm8
CeleraX23,850,391 - 23,874,368 (+)NCBICelera
Cytogenetic MapXA3.3NCBI
cM MapX21.54NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component
cytosol  (ISO)
nucleoplasm  (ISO)
nucleus  (IBA)

Molecular Function

Phenotype Annotations     Click to see Annotation Detail View
References

References - curated
# Reference Title Reference Citation
1. Missense Mutations in NKAP Cause a Disorder of Transcriptional Regulation Characterized by Marfanoid Habitus and Cognitive Impairment. Fiordaliso SK, etal., Am J Hum Genet. 2019 Nov 7;105(5):987-995. doi: 10.1016/j.ajhg.2019.09.009. Epub 2019 Oct 3.
2. Functional annotation of a full-length mouse cDNA collection. Kawai J, etal., Nature. 2001 Feb 8;409(6821):685-90.
3. Analysis of the mouse transcriptome based on functional annotation of 60,770 full-length cDNAs. Okazaki Y, etal., Nature. 2002 Dec 5;420(6915):563-73.
4. Mouse MP Annotation Import Pipeline RGD automated import pipeline
5. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
6. Database resources of the National Center for Biotechnology Information. Wheeler DL, etal., Nucleic Acids Res 2001 Jan 1;29(1):11-6.
Additional References at PubMed
PMID:7671812   PMID:8889548   PMID:10349636   PMID:11042159   PMID:11076861   PMID:12477932   PMID:14550261   PMID:14610273   PMID:15345747   PMID:15489334   PMID:15782199   PMID:16141072  
PMID:16141073   PMID:17182866   PMID:19409814   PMID:20610818   PMID:21624937   PMID:21873635   PMID:23481390   PMID:24583034   PMID:27183586   PMID:29366602   PMID:30457570   PMID:30804042  
PMID:31175160   PMID:31387873   PMID:31632967   PMID:36114006  


Genomics

Comparative Map Data
Nkap
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39X36,390,416 - 36,414,399 (+)NCBIGRCm39GRCm39mm39
GRCm39 EnsemblX36,390,448 - 36,414,399 (+)EnsemblGRCm39 Ensembl
GRCm38X37,126,763 - 37,150,746 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 EnsemblX37,126,795 - 37,150,746 (+)EnsemblGRCm38mm10GRCm38
MGSCv37X34,666,758 - 34,690,741 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36X33,558,261 - 33,582,191 (+)NCBIMGSCv36mm8
CeleraX23,850,391 - 23,874,368 (+)NCBICelera
Cytogenetic MapXA3.3NCBI
cM MapX21.54NCBI
NKAP
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38X119,920,672 - 119,943,751 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 EnsemblX119,920,672 - 119,943,751 (-)EnsemblGRCh38hg38GRCh38
GRCh37X119,054,635 - 119,077,714 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36X118,943,051 - 118,961,763 (-)NCBINCBI36Build 36hg18NCBI36
CeleraX119,513,642 - 119,532,364 (-)NCBICelera
Cytogenetic MapXq24NCBI
HuRefX108,555,462 - 108,574,439 (-)NCBIHuRef
CHM1_1X118,970,042 - 118,988,764 (-)NCBICHM1_1
T2T-CHM13v2.0X118,295,798 - 118,318,877 (-)NCBIT2T-CHM13v2.0
Nkap
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8X121,238,714 - 121,258,360 (+)NCBIGRCr8
mRatBN7.2X116,373,031 - 116,392,677 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 EnsemblX116,372,839 - 116,394,945 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_UtxX118,476,600 - 118,496,278 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0X122,045,736 - 122,065,413 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0X119,591,795 - 119,611,472 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0X123,751,196 - 123,770,595 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 EnsemblX123,751,089 - 123,770,595 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0X123,887,476 - 123,907,122 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4X7,762,215 - 7,781,862 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
CeleraX115,600,861 - 115,620,299 (+)NCBICelera
Cytogenetic MapXq35NCBI
Nkap
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_004955534106,122 - 119,344 (+)EnsemblChiLan1.0
ChiLan1.0NW_004955534106,122 - 119,508 (+)NCBIChiLan1.0ChiLan1.0
NKAP
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2X119,332,833 - 119,351,220 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1X119,336,438 - 119,354,814 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0X108,988,561 - 109,006,946 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1X119,384,489 - 119,402,943 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 EnsemblX119,384,655 - 119,402,775 (-)Ensemblpanpan1.1panPan2
NKAP
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1X91,922,326 - 91,956,566 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 EnsemblX91,923,550 - 91,956,414 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_TashaX77,994,979 - 78,030,230 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0X93,659,144 - 93,694,394 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 EnsemblX93,660,195 - 93,694,327 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1X91,112,068 - 91,147,313 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0X92,871,557 - 92,906,785 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0X92,600,530 - 92,635,783 (-)NCBIUU_Cfam_GSD_1.0
Nkap
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2X90,945,876 - 90,962,816 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_00493647910,024,705 - 10,041,590 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_00493647910,024,674 - 10,041,738 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
NKAP
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 EnsemblX98,256,632 - 98,276,773 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1X98,233,504 - 98,276,839 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2X113,335,166 - 113,355,494 (+)NCBISscrofa10.2Sscrofa10.2susScr3
NKAP
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Vero_WHO_p1.0NW_02366606532,710,929 - 32,731,311 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Nkap
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046248953,840,846 - 3,849,390 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Nkap
582 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:1435
Count of miRNA genes:743
Interacting mature miRNAs:933
Transcripts:ENSMUST00000016553, ENSMUST00000152906
Prediction methods:Miranda, Pita, Rnahybrid
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 (GRCm39)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1357433Dbts2_mdiabetes 2 (mouse)Not determinedX7226295150107038Mouse
1301551Spha1_msperm head anomaly 1 (mouse)Not determinedX1026622539921652Mouse
13208553Wght11_mweight 11 (mouse)X1186623959045360Mouse
13208557Lgth13_mbody length 13 (mouse)X1186623959045360Mouse
1558721Bw1_mbody weight QTL 1 (mouse)Not determinedX2060678347179225Mouse
12738418Lfibq12_mliver fibrosis QTL 12 (mouse)X2572817443635700Mouse
27226750Femd9_mfemur midshaft diameter 9, 10 week (mouse)X3333746355845360Mouse
27226780Femd12_mfemur midshaft diameter 12, 16 week (mouse)X3466365356845360Mouse
13208567Bmiq12_mbody mass index QTL 12 (mouse)X3526365377043606Mouse

Markers in Region
RH125507  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm38X37,149,437 - 37,149,568UniSTSGRCm38
MGSCv37X34,689,432 - 34,689,563UniSTSGRCm37
CeleraX23,873,059 - 23,873,190UniSTS
Cytogenetic MapXA3.3UniSTS
AA987160  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm38X37,150,439 - 37,150,558UniSTSGRCm38
MGSCv37X34,690,434 - 34,690,553UniSTSGRCm37
CeleraX23,874,061 - 23,874,180UniSTS
Cytogenetic MapXA3.3UniSTS
Whitehead/MRC_RHX471.3UniSTS
D20S1001  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm38X37,147,854 - 37,147,953UniSTSGRCm38
GRCm381321,467,266 - 21,467,365UniSTSGRCm38
MGSCv371321,559,135 - 21,559,234UniSTSGRCm37
MGSCv37X34,687,849 - 34,687,948UniSTSGRCm37
Celera1321,733,038 - 21,733,137UniSTS
CeleraX23,871,476 - 23,871,575UniSTS
Cytogenetic MapXA3.3UniSTS
Cytogenetic Map13A3.1UniSTS


Expression


Sequence


Reference Sequences
RefSeq Acc Id: ENSMUST00000016553   ⟹   ENSMUSP00000016553
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 EnsemblX36,390,448 - 36,414,399 (+)Ensembl
GRCm38.p6 EnsemblX37,126,795 - 37,150,746 (+)Ensembl
RefSeq Acc Id: ENSMUST00000152906
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 EnsemblX36,400,069 - 36,405,522 (+)Ensembl
GRCm38.p6 EnsemblX37,136,416 - 37,141,869 (+)Ensembl
RefSeq Acc Id: NM_025937   ⟹   NP_080213
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39X36,390,416 - 36,414,399 (+)NCBI
GRCm38X37,126,763 - 37,150,746 (+)ENTREZGENE
MGSCv37X34,666,758 - 34,690,741 (+)RGD
CeleraX23,850,391 - 23,874,368 (+)RGD
cM MapX ENTREZGENE
Sequence:
Reference Protein Sequences
RefSeq Acc Id: NP_080213   ⟸   NM_025937
- UniProtKB: Q8R324 (UniProtKB/Swiss-Prot),   Q8BYT5 (UniProtKB/Swiss-Prot),   Q8BTK6 (UniProtKB/Swiss-Prot),   Q9CSH4 (UniProtKB/Swiss-Prot),   Q9D0F4 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: ENSMUSP00000016553   ⟸   ENSMUST00000016553

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q9D0F4-F1-model_v2 AlphaFold Q9D0F4 1-415 view protein structure

Promoters
RGD ID:6846025
Promoter ID:MM_KWN:60020
Type:CpG-Island
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:BoneMarrow_0Hour,   BoneMarrow_2Hour,   BoneMarrow_4Hour,   Brain,   ES_Cell,   Liver,   Lung,   MEF_B4,   MEF_B6,   Spleen
Transcripts:NM_025937
Position:
Mouse AssemblyChrPosition (strand)Source
MGSCv36X34,666,731 - 34,667,231 (+)MPROMDB
RGD ID:13680290
Promoter ID:EPDNEW_M24294
Type:initiation region
Name:Nkap_1
Description:Mus musculus NFKB activating protein , mRNA.
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38X37,126,823 - 37,126,883EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene MGI:1914300 AgrOrtholog
Ensembl Genes ENSMUSG00000016409 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSMUST00000016553 ENTREZGENE
  ENSMUST00000016553.5 UniProtKB/Swiss-Prot
InterPro NKAP UniProtKB/Swiss-Prot
  NKAP_C UniProtKB/Swiss-Prot
KEGG Report mmu:67050 UniProtKB/Swiss-Prot
MGD MGI:1914300 ENTREZGENE
NCBI Gene 67050 ENTREZGENE
PANTHER NF-KAPPA-B-ACTIVATING PROTEIN UniProtKB/Swiss-Prot
  PTHR13087 UniProtKB/Swiss-Prot
Pfam NKAP UniProtKB/Swiss-Prot
  Nkap_C UniProtKB/Swiss-Prot
PhenoGen Nkap PhenoGen
UniProt NKAP_MOUSE UniProtKB/Swiss-Prot
  Q8BTK6 ENTREZGENE
  Q8BYT5 ENTREZGENE
  Q8R324 ENTREZGENE
  Q9CSH4 ENTREZGENE
  Q9D0F4 ENTREZGENE
UniProt Secondary Q8BTK6 UniProtKB/Swiss-Prot
  Q8BYT5 UniProtKB/Swiss-Prot
  Q8R324 UniProtKB/Swiss-Prot
  Q9CSH4 UniProtKB/Swiss-Prot