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

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Gene: Nckap1l (NCK associated protein 1 like) Rattus norvegicus
Analyze
Symbol: Nckap1l
Name: NCK associated protein 1 like
RGD ID: 1312032
Description: Predicted to have GTPase activator activity and protein kinase activator activity. Predicted to be involved in several processes, including lymphocyte homeostasis; negative regulation of macromolecule metabolic process; and positive regulation of lymphocyte activation. Predicted to localize to SCAR complex and cytosol. 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; 2,4-dinitrotoluene.
Type: protein-coding
RefSeq Status: PROVISIONAL
Also 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 Genes
More Info more info ...
Latest Assembly: Rnor_6.0 - RGSC Genome Assembly v6.0
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.27134,577,443 - 134,622,934 (+)NCBI
Rnor_6.0 Ensembl7145,068,286 - 145,113,507 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.07145,068,239 - 145,113,507 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.07142,849,455 - 142,894,585 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.47142,351,954 - 142,397,045 (+)NCBIRGSC3.4rn4RGSC3.4
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)
activation of protein kinase activity  (IEA)
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)
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)
negative regulation of myosin-light-chain-phosphatase activity  (ISO,ISS)
neuron projection morphogenesis  (IBA)
neutrophil chemotaxis  (ISO,ISS)
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 phosphorylation  (ISO,ISS)
positive regulation of T cell proliferation  (ISO,ISS)
positive regulation of TORC2 signaling  (ISO)
protein-containing complex assembly  (ISO,ISS)
response to drug  (ISO,ISS)
T cell homeostasis  (ISO,ISS)

Cellular Component
cytosol  (ISO)
SCAR complex  (IBA,ISO,ISS)

Molecular Function

References

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
mRatBN7.27134,577,443 - 134,622,934 (+)NCBI
Rnor_6.0 Ensembl7145,068,286 - 145,113,507 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.07145,068,239 - 145,113,507 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.07142,849,455 - 142,894,585 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.47142,351,954 - 142,397,045 (+)NCBIRGSC3.4rn4RGSC3.4
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
GRCh38.p13 Ensembl1254,497,752 - 54,548,243 (+)EnsemblGRCh38hg38GRCh38
GRCh381254,497,752 - 54,548,243 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh371254,891,536 - 54,942,027 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361253,177,762 - 53,223,166 (+)NCBINCBI36hg18NCBI36
Build 341253,177,779 - 53,223,160NCBI
Celera1254,543,329 - 54,588,759 (+)NCBI
Cytogenetic Map12q13.13-q13.2NCBI
HuRef1251,930,257 - 51,975,669 (+)NCBIHuRef
CHM1_11254,858,206 - 54,903,614 (+)NCBICHM1_1
Nckap1l
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm3915103,362,219 - 103,411,288 (+)NCBIGRCm39mm39
GRCm39 Ensembl15103,362,221 - 103,407,237 (+)Ensembl
GRCm3815103,453,783 - 103,502,860 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl15103,453,794 - 103,498,810 (+)EnsemblGRCm38mm10GRCm38
MGSCv3715103,284,256 - 103,329,231 (+)NCBIGRCm37mm9NCBIm37
MGSCv3615103,281,859 - 103,326,834 (+)NCBImm8
Celera15105,611,951 - 105,656,787 (+)NCBICelera
Cytogenetic Map15F3NCBI
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
PanPan1.11234,932,470 - 34,977,881 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1234,932,470 - 34,977,881 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v01234,200,102 - 34,249,873 (-)NCBIMhudiblu_PPA_v0panPan3
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 (+)NCBI
ROS_Cfam_1.027802,738 - 856,041 (-)NCBI
UMICH_Zoey_3.127795,107 - 848,346 (-)NCBI
UNSW_CanFamBas_1.027803,528 - 857,308 (-)NCBI
UU_Cfam_GSD_1.02745,799,997 - 45,853,537 (+)NCBI
Nckap1l
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494561,430,392 - 61,521,726 (-)NCBI
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 (+)NCBI
Vero_WHO_p1.0NW_023666037195,373,507 - 195,426,134 (-)NCBI
Nckap1l
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046249042,508,576 - 2,575,505 (+)NCBI


QTLs in Region (Rnor_6.0)
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)751251919145729302Rat
70173Niddm19Non-insulin dependent diabetes mellitus QTL 194.330.00005blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)771448715145729302Rat
1358914Bp266Blood pressure QTL 266arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)791832949145158140Rat
1358891Bp265Blood pressure QTL 2652.21arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)791832949145158140Rat
2299163Iddm34Insulin dependent diabetes mellitus QTL 342.71blood glucose amount (VT:0000188)age at onset/diagnosis of type 1 diabetes mellitus (CMO:0001140)7100028953145729302Rat
1549899Stresp8Stress response QTL 84.370.0008stress-related behavior trait (VT:0010451)defensive burying duration (CMO:0001961)7100192194145192194Rat
731176Glom5Glomerulus QTL 52.50.0035kidney glomerulus morphology trait (VT:0005325)count of superficial glomeruli not directly contacting the kidney surface (CMO:0001002)7106564316145729302Rat
731174Uae23Urinary albumin excretion QTL 232.40.0042urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)7114825174145729302Rat
2306821Bp335Blood pressure QTL 3350.001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)7115922628145729302Rat
631663Bw6Body weight QTL 63.4body mass (VT:0001259)body weight (CMO:0000012)7120746024145692398Rat
1300112Bp183Blood pressure QTL 1833.51arterial blood pressure trait (VT:2000000)blood pressure time series experimental set point of the baroreceptor response (CMO:0002593)7121654760145729302Rat
1354582Stl11Serum triglyceride level QTL 113.42blood triglyceride amount (VT:0002644)serum triglyceride level (CMO:0000360)7129412003145729302Rat

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.


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 2 24 16 19 16 1 5 11
Low 1 43 33 25 25 8 11 74 34 36 8
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000065753   ⟹   ENSRNOP00000058936
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl7145,068,290 - 145,113,507 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000088956   ⟹   ENSRNOP00000069084
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl7145,068,286 - 145,112,509 (+)Ensembl
RefSeq Acc Id: NM_001108119   ⟹   NP_001101589
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.27134,577,482 - 134,622,934 (+)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: XM_008765753   ⟹   XP_008763975
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.27134,577,443 - 134,622,928 (+)NCBI
Rnor_6.07145,068,239 - 145,113,501 (+)NCBI
Sequence:
Protein Sequences
Protein RefSeqs NP_001101589 (Get FASTA)   NCBI Sequence Viewer  
  XP_008763975 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein EDL86781 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: NP_001101589   ⟸   NM_001108119
- UniProtKB: D3Z8V4 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_008763975   ⟸   XM_008765753
- Peptide Label: isoform X1
- UniProtKB: A0A0G2JUF9 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000058936   ⟸   ENSRNOT00000065753
RefSeq Acc Id: ENSRNOP00000069084   ⟸   ENSRNOT00000088956

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

Strain Variation

Strain Sequence Variants (Rnor 6.0)
ACI/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
ACI/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
ACI/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
BBDP/Wor (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
BN/SsN (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
Buf/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
COP/CrCrl (MCW & UW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
University of Wisconsin (Dr. James Shull)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Charles River Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob) and UW Madison (Dr. James Shull)
F344/NCrl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
F344/NRrrc (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
FHH/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHH/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
FHL/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHL/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
GH/OmrMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
GK/Ox (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LE/Stm (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/Crl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/NCrlBR (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LH/MavRrrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LL/MavRrrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LN/MavRrrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
M520/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
MHS/Gib (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MNS/Gib (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MR/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
SBH/Ygl (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBH/Ygl sequenced by MCW
SBH/Ygl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SBN/Ygl (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBN/Ygl sequenced by MCW
SBN/Ygl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHR/NHsd (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHRSP/Gcrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SR/JrHsd (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Harlan Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SR/JrHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/Jr (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/JrHsdMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SS/JrHsdMcwi (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WAG/Rij (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/Gcrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
WKY/NCrl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/NHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WN/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1312032 AgrOrtholog
Ensembl Genes ENSRNOG00000036829 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000058936 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOP00000069084 ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000065753 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOT00000088956 UniProtKB/TrEMBL
InterPro Nck-associated_protein-1 UniProtKB/TrEMBL
KEGG Report rno:315348 UniProtKB/TrEMBL
NCBI Gene 315348 ENTREZGENE
PANTHER PTHR12093 UniProtKB/TrEMBL
Pfam Nckap1 UniProtKB/TrEMBL
PhenoGen Nckap1l PhenoGen
UniProt A0A0G2JUF9 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