Nckap1l (NCK associated protein 1 like) - Rat Genome Database

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Gene: Nckap1l (NCK associated protein 1 like) Rattus norvegicus
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Symbol: Nckap1l
Name: NCK associated protein 1 like
RGD ID: 1312032
Description: Predicted to enable GTPase activator activity; TORC2 complex binding activity; and protein kinase activator activity. Predicted to be involved in several processes, including lymphocyte homeostasis; negative regulation of cytokine production; and positive regulation of lymphocyte activation. Predicted to be located in cytosol and plasma membrane. Predicted to be part of SCAR complex. Human ortholog(s) of this gene implicated in immunodeficiency 72. Orthologous to human NCKAP1L (NCK associated protein 1 like); INTERACTS WITH 17beta-estradiol; 17beta-estradiol 3-benzoate; 2,3,7,8-tetrachlorodibenzodioxine.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: Hem1; hematopoietic protein 1; LOC315348; nck-associated protein 1-like
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr87136,455,900 - 136,501,384 (+)NCBIGRCr8
mRatBN7.27134,577,470 - 134,622,928 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl7134,577,482 - 134,622,934 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx7136,332,694 - 136,378,448 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.07138,562,066 - 138,607,823 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.07138,548,331 - 138,593,889 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.07145,068,239 - 145,113,507 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl7145,068,286 - 145,113,507 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.07142,849,455 - 142,894,585 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.47142,351,954 - 142,397,045 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.17142,432,180 - 142,475,970 (+)NCBI
Celera7131,001,894 - 131,046,866 (+)NCBICelera
Cytogenetic Map7q36NCBI
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
actin polymerization-dependent cell motility  (ISO,ISS)
B cell homeostasis  (ISO,ISS)
B cell receptor signaling pathway  (ISO,ISS)
cell migration  (IBA)
cell morphogenesis  (IBA)
cell projection assembly  (IBA)
chemotaxis  (ISO,ISS)
cortical actin cytoskeleton organization  (IBA,ISO,ISS)
erythrocyte development  (ISO)
erythrocyte homeostasis  (ISO,ISS)
intracellular signal transduction  (IEA,ISO,ISS)
maintenance of cell polarity  (ISO,ISS)
myeloid cell homeostasis  (ISO,ISS)
negative regulation of apoptotic process  (ISO,ISS)
negative regulation of cytotoxic T cell degranulation  (ISO)
negative regulation of interleukin-17 production  (ISO,ISS)
negative regulation of interleukin-6 production  (ISO,ISS)
neuron projection morphogenesis  (IBA)
positive regulation of actin filament polymerization  (ISO,ISS)
positive regulation of B cell differentiation  (ISO,ISS)
positive regulation of B cell proliferation  (ISO,ISS)
positive regulation of CD4-positive, alpha-beta T cell differentiation  (ISO,ISS)
positive regulation of CD8-positive, alpha-beta T cell differentiation  (ISO,ISS)
positive regulation of cell adhesion mediated by integrin  (ISO,ISS)
positive regulation of erythrocyte differentiation  (ISO,ISS)
positive regulation of gamma-delta T cell differentiation  (ISO,ISS)
positive regulation of leukocyte migration  (ISO)
positive regulation of lymphocyte differentiation  (ISO,ISS)
positive regulation of neutrophil chemotaxis  (ISO,ISS)
positive regulation of neutrophil migration  (ISO)
positive regulation of phagocytosis, engulfment  (ISO,ISS)
positive regulation of T cell proliferation  (ISO,ISS)
positive regulation of TORC2 signaling  (ISO)
protein-containing complex assembly  (ISO,ISS)
response to xenobiotic stimulus  (ISO,ISS)
T cell homeostasis  (ISO,ISS)

Cellular Component
cytosol  (ISO)
plasma membrane  (IEA,ISO)
SCAR complex  (IBA,ISO,ISS)

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 GOA human gene data--August 2006 GOA 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:7643388   PMID:16417406   PMID:17875758   PMID:19015308   PMID:19946888   PMID:20458337   PMID:23424621  


Genomics

Comparative Map Data
Nckap1l
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr87136,455,900 - 136,501,384 (+)NCBIGRCr8
mRatBN7.27134,577,470 - 134,622,928 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl7134,577,482 - 134,622,934 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx7136,332,694 - 136,378,448 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.07138,562,066 - 138,607,823 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.07138,548,331 - 138,593,889 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.07145,068,239 - 145,113,507 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl7145,068,286 - 145,113,507 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.07142,849,455 - 142,894,585 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.47142,351,954 - 142,397,045 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.17142,432,180 - 142,475,970 (+)NCBI
Celera7131,001,894 - 131,046,866 (+)NCBICelera
Cytogenetic Map7q36NCBI
NCKAP1L
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381254,497,752 - 54,548,243 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1254,497,752 - 54,548,243 (+)EnsemblGRCh38hg38GRCh38
GRCh371254,891,536 - 54,942,027 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361253,177,762 - 53,223,166 (+)NCBINCBI36Build 36hg18NCBI36
Build 341253,177,779 - 53,223,160NCBI
Celera1254,543,329 - 54,588,759 (+)NCBICelera
Cytogenetic Map12q13.13-q13.2NCBI
HuRef1251,930,257 - 51,975,669 (+)NCBIHuRef
CHM1_11254,858,206 - 54,903,614 (+)NCBICHM1_1
T2T-CHM13v2.01254,464,313 - 54,514,824 (+)NCBIT2T-CHM13v2.0
Nckap1l
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm3915103,362,219 - 103,411,288 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl15103,362,221 - 103,407,237 (+)EnsemblGRCm39 Ensembl
GRCm3815103,453,783 - 103,502,860 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl15103,453,794 - 103,498,810 (+)EnsemblGRCm38mm10GRCm38
MGSCv3715103,284,256 - 103,329,231 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv3615103,281,859 - 103,326,834 (+)NCBIMGSCv36mm8
Celera15105,611,951 - 105,656,787 (+)NCBICelera
Cytogenetic Map15F3NCBI
cM Map1558.96NCBI
Nckap1l
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554581,733,883 - 1,784,182 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554581,733,799 - 1,785,591 (+)NCBIChiLan1.0ChiLan1.0
NCKAP1L
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21039,627,314 - 39,677,242 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11239,624,083 - 39,674,011 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01234,200,102 - 34,249,873 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11234,932,470 - 34,977,881 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1234,932,470 - 34,977,881 (-)Ensemblpanpan1.1panPan2
NCKAP1L
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.127805,274 - 858,901 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl27805,310 - 843,439 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2745,396,099 - 45,449,340 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.027802,738 - 856,041 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl27802,751 - 840,879 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.127795,107 - 848,346 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.027803,528 - 857,308 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02745,799,997 - 45,853,537 (+)NCBIUU_Cfam_GSD_1.0
Nckap1l
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494561,430,392 - 61,521,726 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_00493651211,683,321 - 11,734,391 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_00493651211,683,330 - 11,734,423 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
NCKAP1L
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl519,677,875 - 19,723,132 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1519,677,613 - 19,720,550 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
NCKAP1L
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11150,611,193 - 50,658,800 (+)NCBIChlSab1.1ChlSab1.1chlSab2
Vero_WHO_p1.0NW_023666037195,373,507 - 195,426,134 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Nckap1l
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046249042,508,799 - 2,578,609 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046249042,508,576 - 2,575,505 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Nckap1l
124 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:618
Count of miRNA genes:271
Interacting mature miRNAs:353
Transcripts:ENSRNOT00000065753
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.


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1300179Kidm5Kidney mass QTL 53.51kidney mass (VT:0002707)left kidney wet weight (CMO:0000083)743747012135012528Rat
1354582Stl11Serum triglyceride level QTL 113.42blood triglyceride amount (VT:0002644)serum triglyceride level (CMO:0000360)7119513385135012528Rat
731176Glom5Glomerulus QTL 52.50.0035kidney glomerulus morphology trait (VT:0005325)count of superficial glomeruli not directly contacting the kidney surface (CMO:0001002)796670164135012528Rat
1300112Bp183Blood pressure QTL 1833.51arterial blood pressure trait (VT:2000000)blood pressure time series experimental set point of the baroreceptor response (CMO:0002593)7111182207135012528Rat
1358914Bp266Blood pressure QTL 266arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)783591953134666232Rat
2306821Bp335Blood pressure QTL 3350.001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)7106571501135012528Rat
631663Bw6Body weight QTL 63.4body mass (VT:0001259)body weight (CMO:0000012)7111075573134976056Rat
2299163Iddm34Insulin dependent diabetes mellitus QTL 342.71blood glucose amount (VT:0000188)age at onset/diagnosis of type 1 diabetes mellitus (CMO:0001140)791281130135012528Rat
70173Niddm19Non-insulin dependent diabetes mellitus QTL 194.330.00005blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)764002457135012528Rat
1549899Stresp8Stress response QTL 84.370.0008stress-related behavior trait (VT:0010451)defensive burying duration (CMO:0001961)790482196135012528Rat
731174Uae23Urinary albumin excretion QTL 232.40.0042urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)7104603555135012528Rat
1358891Bp265Blood pressure QTL 2652.21arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)783591953134666232Rat


Expression

RNA-SEQ Expression

alimentary part of gastrointestinal system
appendage
circulatory system
ectoderm
endocrine system
endoderm
exocrine system
hemolymphoid system
hepatobiliary system
integumental system
mesenchyme
mesoderm
nervous system
renal system
reproductive system
respiratory system
9 11 49 113 91 90 59 25 59 6 218 97 93 45 60 31

Sequence


Ensembl Acc Id: ENSRNOT00000065753   ⟹   ENSRNOP00000058936
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl7134,577,482 - 134,622,934 (+)Ensembl
Rnor_6.0 Ensembl7145,068,290 - 145,113,507 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000088956   ⟹   ENSRNOP00000069084
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl7134,577,482 - 134,622,934 (+)Ensembl
Rnor_6.0 Ensembl7145,068,286 - 145,112,509 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000114807   ⟹   ENSRNOP00000094127
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl7134,577,482 - 134,622,934 (+)Ensembl
RefSeq Acc Id: NM_001108119   ⟹   NP_001101589
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr87136,455,929 - 136,501,384 (+)NCBI
mRatBN7.27134,577,470 - 134,622,928 (+)NCBI
Rnor_6.07145,068,290 - 145,113,507 (+)NCBI
Rnor_5.07142,849,455 - 142,894,585 (+)NCBI
RGSC_v3.47142,351,954 - 142,397,045 (+)RGD
Celera7131,001,894 - 131,046,866 (+)RGD
Sequence:
RefSeq Acc Id: NM_001414951   ⟹   NP_001401880
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr87136,455,929 - 136,501,384 (+)NCBI
mRatBN7.27134,577,470 - 134,622,928 (+)NCBI
RefSeq Acc Id: XM_063263688   ⟹   XP_063119758
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr87136,455,900 - 136,492,797 (+)NCBI
Protein Sequences
Protein RefSeqs NP_001101589 (Get FASTA)   NCBI Sequence Viewer  
  NP_001401880 (Get FASTA)   NCBI Sequence Viewer  
  XP_063119758 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein EDL86781 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000058936.2
  ENSRNOP00000069084.1
  ENSRNOP00000094127.1
RefSeq Acc Id: NP_001101589   ⟸   NM_001108119
- Peptide Label: isoform 2
- UniProtKB: D3Z8V4 (UniProtKB/TrEMBL),   A6KD11 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000058936   ⟸   ENSRNOT00000065753
Ensembl Acc Id: ENSRNOP00000069084   ⟸   ENSRNOT00000088956
Ensembl Acc Id: ENSRNOP00000094127   ⟸   ENSRNOT00000114807
RefSeq Acc Id: NP_001401880   ⟸   NM_001414951
- Peptide Label: isoform 1
- UniProtKB: A0A0G2JUF9 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_063119758   ⟸   XM_063263688
- Peptide Label: isoform X1

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-A0A0G2JUF9-F1-model_v2 AlphaFold A0A0G2JUF9 1-1134 view protein structure

Transcriptome

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

Promoters
RGD ID:13695718
Promoter ID:EPDNEW_R6243
Type:initiation region
Name:Nckap1l_1
Description:NCK associated protein 1 like
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_6.07145,068,317 - 145,068,377EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1312032 AgrOrtholog
BioCyc Gene G2FUF-31869 BioCyc
Ensembl Genes ENSRNOG00000036829 Ensembl, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000065753.2 UniProtKB/TrEMBL
  ENSRNOT00000088956.2 UniProtKB/TrEMBL
  ENSRNOT00000114807.1 UniProtKB/TrEMBL
InterPro Nck-associated_protein-1 UniProtKB/TrEMBL
KEGG Report rno:315348 UniProtKB/TrEMBL
NCBI Gene 315348 ENTREZGENE
PANTHER NCK-ASSOCIATED PROTEIN 1-LIKE UniProtKB/TrEMBL
  PTHR12093 UniProtKB/TrEMBL
Pfam Nckap1 UniProtKB/TrEMBL
PhenoGen Nckap1l PhenoGen
RatGTEx ENSRNOG00000036829 RatGTEx
UniProt A0A0G2JUF9 ENTREZGENE, UniProtKB/TrEMBL
  A0A8I6AH32_RAT UniProtKB/TrEMBL
  A6KD11 ENTREZGENE, UniProtKB/TrEMBL
  D3Z8V4 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-04-30 Nckap1l  NCK associated protein 1 like   Nckap1l_predicted  NCK associated protein 1 like (predicted)  'predicted' is removed 2292626 APPROVED
2006-03-30 Nckap1l_predicted  NCK associated protein 1 like (predicted)  Hem1_predicted  hematopoietic protein 1 (predicted)  Symbol and Name updated 1299863 APPROVED
2005-01-12 Hem1_predicted  hematopoietic protein 1 (predicted)      Symbol and Name status set to approved 70820 APPROVED