Nup188 (nucleoporin 188) - Rat Genome Database

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Gene: Nup188 (nucleoporin 188) Rattus norvegicus
Analyze
Symbol: Nup188
Name: nucleoporin 188
RGD ID: 1306022
Description: Predicted to be a structural constituent of nuclear pore. Predicted to be involved in RNA export from nucleus and protein import into nucleus. Predicted to localize to nuclear pore inner ring. Orthologous to human NUP188 (nucleoporin 188); PARTICIPATES IN RNA transport pathway; INTERACTS WITH 2,4-dinitrotoluene; amphetamine; bisphenol A.
Type: protein-coding
RefSeq Status: MODEL
Also known as: LOC100911302; LOC366016; nucleoporin NUP188; nucleoporin NUP188 homolog
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
mRatBN7.2313,559,917 - 13,616,313 (+)NCBI
Rnor_6.0 Ensembl38,873,933 - 8,908,438 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.038,852,271 - 8,908,608 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.0314,205,251 - 14,261,382 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.439,331,812 - 9,388,204 (+)NCBIRGSC3.4rn4RGSC3.4
Celera38,326,493 - 8,382,816 (+)NCBICelera
Cytogenetic Map3p12NCBI
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

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
References

Additional References at PubMed
PMID:12477932   PMID:19946888   PMID:26878725  


Genomics

Comparative Map Data
Nup188
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2313,559,917 - 13,616,313 (+)NCBI
Rnor_6.0 Ensembl38,873,933 - 8,908,438 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.038,852,271 - 8,908,608 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.0314,205,251 - 14,261,382 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.439,331,812 - 9,388,204 (+)NCBIRGSC3.4rn4RGSC3.4
Celera38,326,493 - 8,382,816 (+)NCBICelera
Cytogenetic Map3p12NCBI
NUP188
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl9128,947,699 - 129,007,096 (+)EnsemblGRCh38hg38GRCh38
GRCh389128,947,699 - 129,007,096 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh379131,709,978 - 131,769,375 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 369130,749,798 - 130,809,195 (+)NCBINCBI36hg18NCBI36
Build 349128,789,563 - 128,848,928NCBI
Celera9102,361,838 - 102,421,686 (+)NCBI
Cytogenetic Map9q34.11NCBI
HuRef9101,317,691 - 101,376,696 (+)NCBIHuRef
CHM1_19131,861,021 - 131,920,403 (+)NCBICHM1_1
Nup188
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39230,176,400 - 30,234,278 (+)NCBIGRCm39mm39
GRCm39 Ensembl230,176,409 - 30,234,278 (+)Ensembl
GRCm38230,286,407 - 30,344,266 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl230,286,397 - 30,344,266 (+)EnsemblGRCm38mm10GRCm38
MGSCv37230,141,953 - 30,199,782 (+)NCBIGRCm37mm9NCBIm37
MGSCv36230,108,442 - 30,166,271 (+)NCBImm8
Celera229,991,190 - 30,049,297 (+)NCBICelera
Cytogenetic Map2BNCBI
Nup188
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049555701,312,998 - 1,369,513 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049555701,312,998 - 1,369,513 (+)NCBIChiLan1.0ChiLan1.0
NUP188
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.19128,733,749 - 128,791,252 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl9128,733,780 - 128,791,252 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v09100,069,656 - 100,130,521 (+)NCBIMhudiblu_PPA_v0panPan3
NUP188
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1954,657,520 - 54,712,900 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl954,657,682 - 54,712,827 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha953,853,072 - 53,908,426 (-)NCBI
ROS_Cfam_1.0955,578,563 - 55,633,941 (-)NCBI
UMICH_Zoey_3.1954,340,129 - 54,395,076 (-)NCBI
UNSW_CanFamBas_1.0954,652,331 - 54,707,442 (-)NCBI
UU_Cfam_GSD_1.0954,745,638 - 54,800,996 (-)NCBI
Nup188
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024404947196,639,939 - 196,694,386 (+)NCBI
SpeTri2.0NW_00493648716,408,523 - 16,462,916 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
NUP188
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1269,259,519 - 269,313,650 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11269,259,496 - 269,312,872 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21303,275,625 - 303,328,996 (+)NCBISscrofa10.2Sscrofa10.2susScr3
NUP188
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1129,150,603 - 9,213,512 (-)NCBI
ChlSab1.1 Ensembl129,151,005 - 9,208,452 (-)Ensembl
Vero_WHO_p1.0NW_023666096299,833 - 407,072 (+)NCBI
Nup188
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046247606,061,130 - 6,120,597 (-)NCBI

Position Markers
RH129640  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2313,616,073 - 13,616,256 (+)MAPPER
Rnor_6.038,908,369 - 8,908,551NCBIRnor6.0
Rnor_5.0314,261,143 - 14,261,325UniSTSRnor5.0
RGSC_v3.439,387,965 - 9,388,147UniSTSRGSC3.4
Celera38,382,577 - 8,382,759UniSTS
RH 3.4 Map351.31UniSTS
Cytogenetic Map3p12UniSTS
RH134009  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2313,616,943 - 13,617,144 (+)MAPPER
Rnor_6.038,909,239 - 8,909,439NCBIRnor6.0
Rnor_5.0314,262,013 - 14,262,213UniSTSRnor5.0
RGSC_v3.439,388,835 - 9,389,035UniSTSRGSC3.4
Celera38,383,447 - 8,383,647UniSTS
Cytogenetic Map3p12UniSTS
MARC_17455-17456:1028295191:1  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2313,590,331 - 13,591,009 (+)MAPPER
Rnor_6.038,882,657 - 8,883,334NCBIRnor6.0
Rnor_5.0314,235,607 - 14,236,284UniSTSRnor5.0
RGSC_v3.439,362,143 - 9,362,820UniSTSRGSC3.4
Celera38,356,878 - 8,357,555UniSTS
Cytogenetic Map3p12UniSTS


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
631679Cm10Cardiac mass QTL 107.340.0001heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)3125786001Rat
70202Alc19Alcohol consumption QTL 192.5drinking behavior trait (VT:0001422)ethanol intake volume to total fluid intake volume ratio (CMO:0001591)3128136884Rat
631545Bp85Blood pressure QTL 853.1arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)3128500807Rat
61468Bp15Blood pressure QTL 154.4blood pressure trait (VT:0000183)diastolic blood pressure (CMO:0000005)3128500807Rat
61468Bp15Blood pressure QTL 154.4blood pressure trait (VT:0000183)systolic blood pressure (CMO:0000004)3128500807Rat
61468Bp15Blood pressure QTL 154.4blood pressure trait (VT:0000183)pulse pressure (CMO:0000292)3128500807Rat
631831Alc8Alcohol consumption QTL 82.7consumption behavior trait (VT:0002069)calculated ethanol drink intake rate (CMO:0001615)3132972944Rat
4889966Bss95Bone structure and strength QTL 954.4tibia area (VT:1000281)tibia-fibula cross-sectional area (CMO:0001718)3137891710Rat
2312664Scl62Serum cholesterol level QTL 620.05blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)3139773425Rat
2290452Scl56Serum cholesterol level QTL 562.26blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)3195176874Rat
1298526Arunc3Aerobic running capacity QTL 32.2exercise endurance trait (VT:0002332)maximum distance run on treadmill (CMO:0001406)3263142133477544Rat
10401810Kidm53Kidney mass QTL 53kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)3263142148562146Rat
70203Gcr2Gastric cancer resistance QTL 22.6stomach morphology trait (VT:0000470)stomach tumor susceptibility score (CMO:0002043)3328592928136884Rat
1358357Srcrtb1Stress Responsive Cort Basal QTL 16.360.002blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)3328592928136884Rat
8693641Alc30Alcohol consumption QTL 3020.739drinking behavior trait (VT:0001422)calculated ethanol drink intake rate (CMO:0001615)3565463925105730Rat
1558654Bw56Body weight QTL 564.50.0000171body mass (VT:0001259)body weight (CMO:0000012)3600074834394365Rat
6893355Bw101Body weight QTL 1010.40.38body mass (VT:0001259)body weight (CMO:0000012)3600074834394365Rat
6893363Bw105Body weight QTL 1052.60.0036body mass (VT:0001259)body weight (CMO:0000012)3600074834394365Rat
70191BpQTLcluster4Blood pressure QTL cluster 43arterial blood pressure trait (VT:2000000)absolute change in mean arterial blood pressure (CMO:0000533)3600074851687917Rat
70191BpQTLcluster4Blood pressure QTL cluster 43arterial blood pressure trait (VT:2000000)absolute change in systolic blood pressure (CMO:0000607)3600074851687917Rat
1558647Cm46Cardiac mass QTL 465.40.0000055heart mass (VT:0007028)heart wet weight (CMO:0000069)3600086634394121Rat
1558650Cm48Cardiac mass QTL 4840.0001heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)3600086634394121Rat
1558657Cm43Cardiac mass QTL 436.60.0000000293heart mass (VT:0007028)heart wet weight (CMO:0000069)3600086634394121Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:83
Count of miRNA genes:67
Interacting mature miRNAs:79
Transcripts:ENSRNOT00000030996
Prediction methods: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 3 28 38 22 19 22 63 29 41 11
Low 15 19 19 19 8 11 11 6 8
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000030996   ⟹   ENSRNOP00000032298
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl38,873,933 - 8,908,438 (+)Ensembl
RefSeq Acc Id: XM_001077334   ⟹   XP_001077334
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Celera38,326,493 - 8,382,816 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006224340   ⟹   XP_006224402
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Celera38,326,493 - 8,382,816 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006224341   ⟹   XP_006224403
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Celera38,330,650 - 8,382,816 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006233905   ⟹   XP_006233967
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2313,559,917 - 13,616,313 (+)NCBI
Rnor_6.038,852,271 - 8,908,608 (+)NCBI
Rnor_5.0314,205,251 - 14,261,382 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006233906   ⟹   XP_006233968
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2313,564,593 - 13,616,313 (+)NCBI
Rnor_6.038,856,428 - 8,908,608 (+)NCBI
Rnor_5.0314,205,251 - 14,261,382 (+)NCBI
Sequence:
RefSeq Acc Id: XM_039106780   ⟹   XP_038962708
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2313,559,917 - 13,610,198 (+)NCBI
RefSeq Acc Id: XM_345335   ⟹   XP_345336
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2313,559,917 - 13,616,313 (+)NCBI
Rnor_6.038,852,271 - 8,908,608 (+)NCBI
Rnor_5.0314,205,251 - 14,261,382 (+)NCBI
RGSC_v3.439,331,812 - 9,388,204 (+)RGD
Sequence:
Protein Sequences
Protein RefSeqs XP_006233967 (Get FASTA)   NCBI Sequence Viewer  
  XP_006233968 (Get FASTA)   NCBI Sequence Viewer  
  XP_038962708 (Get FASTA)   NCBI Sequence Viewer  
  XP_345336 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAH86451 (Get FASTA)   NCBI Sequence Viewer  
  EDL93327 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: XP_001077334   ⟸   XM_001077334
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: XP_345336   ⟸   XM_345335
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: XP_006224402   ⟸   XM_006224340
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_006224403   ⟸   XM_006224341
- Peptide Label: isoform X3
- Sequence:
RefSeq Acc Id: XP_006233967   ⟸   XM_006233905
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_006233968   ⟸   XM_006233906
- Peptide Label: isoform X3
- Sequence:
RefSeq Acc Id: ENSRNOP00000032298   ⟸   ENSRNOT00000030996
RefSeq Acc Id: XP_038962708   ⟸   XM_039106780
- Peptide Label: isoform X4

Transcriptome

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


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)
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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
MR/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
SBH/Ygl (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: SBH/Ygl sequenced by MCW
SBH/Ygl (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
SBN/Ygl (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: SBN/Ygl sequenced by MCW
SBN/Ygl (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
SHR/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
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:1306022 AgrOrtholog
Ensembl Genes ENSRNOG00000025185 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000032298 ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000030996 UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7303973 IMAGE-MGC_LOAD
InterPro ARM-type_fold UniProtKB/TrEMBL
  Nucleoporin_Nup188 UniProtKB/TrEMBL
MGC_CLONE MGC:106006 IMAGE-MGC_LOAD
NCBI Gene 366016 ENTREZGENE
Pfam Nup188 UniProtKB/TrEMBL
PhenoGen Nup188 PhenoGen
Superfamily-SCOP SSF48371 UniProtKB/TrEMBL
UniProt F1LRC6_RAT UniProtKB/TrEMBL
  Q5RJY5_RAT UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2021-03-09 Nup188  nucleoporin 188  LOC100911302  nucleoporin NUP188 homolog  Data Merged 737654 PROVISIONAL
2012-07-05 LOC100911302  nucleoporin NUP188 homolog      Symbol and Name status set to provisional 70820 PROVISIONAL
2005-12-06 Nup188  nucleoporin 188  Nup188_predicted  nucleoporin 188 (predicted)  Symbol and Name updated 1559027 APPROVED
2005-01-12 Nup188_predicted  nucleoporin 188 (predicted)      Symbol and Name status set to approved 70820 APPROVED