Nckap5l (NCK-associated protein 5-like) - Rat Genome Database

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Gene: Nckap5l (NCK-associated protein 5-like) Rattus norvegicus
Analyze
Symbol: Nckap5l
Name: NCK-associated protein 5-like
RGD ID: 1561571
Description: Predicted to be involved in microtubule bundle formation and microtubule depolymerization. Predicted to be located in centrosome. Predicted to be active in microtubule plus-end. Orthologous to human NCKAP5L (NCK associated protein 5 like); INTERACTS WITH acetamide; amphetamine; bisphenol A.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: hypothetical LOC315297; LOC315297; RGD1561571; similar to Riken cDNA C230021P08
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
GRCr87132,433,569 - 132,470,638 (-)NCBIGRCr8
mRatBN7.27130,553,683 - 130,591,886 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl7130,555,368 - 130,591,857 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx7132,360,543 - 132,372,490 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.07134,586,119 - 134,598,068 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.07134,498,631 - 134,510,573 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.07141,081,943 - 141,093,924 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl7141,081,943 - 141,095,691 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0X115,585,526 - 115,597,266 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.47138,168,068 - 138,179,412 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera7127,037,669 - 127,049,646 (-)NCBICelera
Cytogenetic Map7q36NCBI
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. 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. 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:26485573  


Genomics

Comparative Map Data
Nckap5l
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr87132,433,569 - 132,470,638 (-)NCBIGRCr8
mRatBN7.27130,553,683 - 130,591,886 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl7130,555,368 - 130,591,857 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx7132,360,543 - 132,372,490 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.07134,586,119 - 134,598,068 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.07134,498,631 - 134,510,573 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.07141,081,943 - 141,093,924 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl7141,081,943 - 141,095,691 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0X115,585,526 - 115,597,266 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.47138,168,068 - 138,179,412 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera7127,037,669 - 127,049,646 (-)NCBICelera
Cytogenetic Map7q36NCBI
NCKAP5L
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381249,791,152 - 49,828,413 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1249,791,146 - 49,828,750 (-)EnsemblGRCh38hg38GRCh38
GRCh371250,184,935 - 50,222,196 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361248,471,202 - 48,508,475 (-)NCBINCBI36Build 36hg18NCBI36
Celera1248,980,950 - 49,018,227 (-)NCBICelera
Cytogenetic Map12q13.12NCBI
HuRef1247,216,094 - 47,253,370 (-)NCBIHuRef
CHM1_11250,151,271 - 50,188,534 (-)NCBICHM1_1
T2T-CHM13v2.01249,754,152 - 49,791,427 (-)NCBIT2T-CHM13v2.0
Nckap5l
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391599,319,915 - 99,355,676 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1599,319,916 - 99,355,629 (-)EnsemblGRCm39 Ensembl
GRCm381599,422,034 - 99,457,938 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1599,422,035 - 99,457,748 (-)EnsemblGRCm38mm10GRCm38
MGSCv371599,252,465 - 99,288,179 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361599,250,068 - 99,285,782 (-)NCBIMGSCv36mm8
Celera15101,577,208 - 101,613,081 (-)NCBICelera
Cytogenetic Map15F1NCBI
cM Map1556.13NCBI
Nckap5l
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_004955547379,440 - 417,284 (-)EnsemblChiLan1.0
ChiLan1.0NW_004955547381,338 - 416,658 (-)NCBIChiLan1.0ChiLan1.0
NCKAP5L
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21044,356,289 - 44,393,759 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11244,353,186 - 44,390,513 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01238,922,936 - 38,960,273 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11239,816,637 - 39,853,800 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1239,816,637 - 39,853,800 (+)Ensemblpanpan1.1panPan2
NCKAP5L
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1274,873,200 - 4,902,307 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl274,873,291 - 4,902,307 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2741,354,605 - 41,384,521 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0274,922,585 - 4,952,633 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl274,922,608 - 4,952,637 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1274,888,087 - 4,918,095 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0274,877,602 - 4,907,623 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02741,749,353 - 41,779,367 (-)NCBIUU_Cfam_GSD_1.0
Nckap5l
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494565,660,366 - 65,694,406 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365127,470,057 - 7,504,808 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049365127,470,425 - 7,504,421 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
NCKAP5L
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl515,711,253 - 15,725,097 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1515,711,242 - 15,761,401 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2516,197,636 - 16,247,776 (+)NCBISscrofa10.2Sscrofa10.2susScr3
NCKAP5L
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11146,028,803 - 46,067,081 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1146,027,202 - 46,067,067 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_023666037200,055,780 - 200,094,288 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Nckap5l
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046248162,464,915 - 2,503,548 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046248162,464,992 - 2,503,042 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Nckap5l
148 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:87
Count of miRNA genes:79
Interacting mature miRNAs:82
Transcripts:ENSRNOT00000022937
Prediction methods:Microtar, Miranda, Pita, 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
70173Niddm19Non-insulin dependent diabetes mellitus QTL 194.330.00005blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)764002457135012528Rat
1358891Bp265Blood pressure QTL 2652.21arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)783591953134666232Rat
1358914Bp266Blood pressure QTL 266arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)783591953134666232Rat
1558655Swd4Spike wave discharge measurement QTL 43.680.0002brain electrophysiology trait (VT:0010557)brain spike-and-wave discharge severity grade (CMO:0001988)786983365131983365Rat
1549899Stresp8Stress response QTL 84.370.0008stress-related behavior trait (VT:0010451)defensive burying duration (CMO:0001961)790482196135012528Rat
2299163Iddm34Insulin dependent diabetes mellitus QTL 342.71blood glucose amount (VT:0000188)age at onset/diagnosis of type 1 diabetes mellitus (CMO:0001140)791281130135012528Rat
731176Glom5Glomerulus QTL 52.50.0035kidney glomerulus morphology trait (VT:0005325)count of superficial glomeruli not directly contacting the kidney surface (CMO:0001002)796670164135012528Rat
1331731Bp216Blood pressure QTL 2162.851arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)7102297359133492884Rat
731174Uae23Urinary albumin excretion QTL 232.40.0042urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)7104603555135012528Rat
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
1300112Bp183Blood pressure QTL 1833.51arterial blood pressure trait (VT:2000000)blood pressure time series experimental set point of the baroreceptor response (CMO:0002593)7111182207135012528Rat
1331748Bp215Blood pressure QTL 2154.043arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)7112308254133492884Rat
1357339Stl14Serum triglyceride level QTL 143.450.0001blood triglyceride amount (VT:0002644)serum triglyceride level (CMO:0000360)7112729683133492707Rat
1354582Stl11Serum triglyceride level QTL 113.42blood triglyceride amount (VT:0002644)serum triglyceride level (CMO:0000360)7119513385135012528Rat

Markers in Region
AI547617  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.27130,576,879 - 130,577,059 (+)MAPPERmRatBN7.2
Rnor_6.07141,103,446 - 141,103,625NCBIRnor6.0
Rnor_5.0X115,606,728 - 115,606,907UniSTSRnor5.0
RGSC_v3.47138,189,114 - 138,189,293UniSTSRGSC3.4
Celera7127,059,117 - 127,059,296UniSTS
RH 3.4 Map71076.9UniSTS
Cytogenetic Map7q36UniSTS


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 28 4 4 2 4 65 20 31 2
Low 3 15 45 29 17 29 8 11 9 15 10 9 8
Below cutoff 8 8 8

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000081434   ⟹   ENSRNOP00000073580
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl7130,555,368 - 130,591,857 (-)Ensembl
Rnor_6.0 Ensembl7141,082,149 - 141,095,691 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000086276   ⟹   ENSRNOP00000071323
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl7141,081,943 - 141,093,924 (-)Ensembl
RefSeq Acc Id: NM_001271369   ⟹   NP_001258298
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr87132,433,574 - 132,470,536 (-)NCBI
mRatBN7.27130,554,719 - 130,591,671 (-)NCBI
Rnor_6.07141,081,943 - 141,093,924 (-)NCBI
Rnor_5.0X115,585,526 - 115,597,266 (-)NCBI
Celera7127,037,669 - 127,049,646 (-)NCBI
Sequence:
RefSeq Acc Id: XM_039079326   ⟹   XP_038935254
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr87132,433,569 - 132,470,638 (-)NCBI
mRatBN7.27130,553,683 - 130,591,886 (-)NCBI
RefSeq Acc Id: XM_039079328   ⟹   XP_038935256
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr87132,433,569 - 132,470,516 (-)NCBI
mRatBN7.27130,553,683 - 130,591,671 (-)NCBI
RefSeq Acc Id: XM_063263672   ⟹   XP_063119742
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr87132,433,569 - 132,469,197 (-)NCBI
Protein Sequences
Protein RefSeqs NP_001258298 (Get FASTA)   NCBI Sequence Viewer  
  XP_038935254 (Get FASTA)   NCBI Sequence Viewer  
  XP_038935256 (Get FASTA)   NCBI Sequence Viewer  
  XP_063119742 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein EDL86987 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000073580
  ENSRNOP00000073580.2
Reference Protein Sequences
RefSeq Acc Id: NP_001258298   ⟸   NM_001271369
- UniProtKB: A0A0G2K5W1 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000073580   ⟸   ENSRNOT00000081434
RefSeq Acc Id: ENSRNOP00000071323   ⟸   ENSRNOT00000086276
RefSeq Acc Id: XP_038935254   ⟸   XM_039079326
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038935256   ⟸   XM_039079328
- Peptide Label: isoform X2
- UniProtKB: A0A0G2K5W1 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_063119742   ⟸   XM_063263672
- Peptide Label: isoform X2
- UniProtKB: A0A0G2K5W1 (UniProtKB/TrEMBL)
Protein Domains
Nck-associated protein 5 C-terminal

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D3Z9A7-F1-model_v2 AlphaFold D3Z9A7 1-1325 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:1561571 AgrOrtholog
BioCyc Gene G2FUF-32073 BioCyc
Ensembl Genes ENSRNOG00000056678 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000081434.2 UniProtKB/TrEMBL
InterPro NCKAP5_C UniProtKB/TrEMBL
  Nckap5l UniProtKB/TrEMBL
KEGG Report rno:315297 UniProtKB/TrEMBL
NCBI Gene 315297 ENTREZGENE
PANTHER NCK-ASSOCIATED PROTEIN 5-LIKE UniProtKB/TrEMBL
  PTHR21740 UniProtKB/TrEMBL
Pfam NCKAP5 UniProtKB/TrEMBL
PhenoGen Nckap5l PhenoGen
RatGTEx ENSRNOG00000056678 RatGTEx
UniProt A0A0G2K5W1 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2010-05-05 Nckap5l  NCK-associated protein 5-like  RGD1561571  similar to Riken cDNA C230021P08  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-04-30 RGD1561571  similar to Riken cDNA C230021P08   RGD1561571_predicted  similar to Riken cDNA C230021P08 (predicted)  'predicted' is removed 2292626 APPROVED
2006-03-30 RGD1561571_predicted  similar to Riken cDNA C230021P08 (predicted)    RGD1561571 (predicted)  Name updated 1299863 APPROVED
2006-03-07 RGD1561571_predicted  RGD1561571 (predicted)  LOC315297  hypothetical LOC315297  Symbol and Name status set to approved 1299863 APPROVED
2006-02-09 LOC315297  hypothetical LOC315297      Symbol and Name status set to provisional 70820 PROVISIONAL