Gbp1 (guanylate binding protein 1) - Rat Genome Database

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Gene: Gbp1 (guanylate binding protein 1) Rattus norvegicus
Analyze
Symbol: Gbp1
Name: guanylate binding protein 1
RGD ID: 1311877
Description: Predicted to have several functions, including Hsp90 protein binding activity; cytoskeletal protein binding activity; and purine ribonucleoside binding activity. Predicted to be involved in several processes, including cellular response to cytokine stimulus; defense response to other organism; and regulation of signal transduction. Predicted to localize to several cellular components, including Golgi apparatus; actin cytoskeleton; and vesicle membrane. Orthologous to human GBP1 (guanylate binding protein 1); INTERACTS WITH 17beta-estradiol; 17beta-estradiol 3-benzoate; aconitine.
Type: protein-coding
RefSeq Status: MODEL
Also known as: guanylate binding protein 1, interferon-inducible; guanylate binding protein 1, interferon-inducible, 67kDa; guanylate-binding protein 1; interferon-induced guanylate-binding protein 1; LOC304266
RGD Orthologs
Human
Mouse
Dog
Alliance Genes
More Info more info ...
Latest Assembly: Rnor_6.0 - RGSC Genome Assembly v6.0
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.22231,398,136 - 231,432,773 (+)NCBI
Rnor_6.0 Ensembl2248,398,917 - 248,409,570 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.02248,343,334 - 248,423,402 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.02266,908,013 - 266,948,528 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.42240,715,506 - 240,739,741 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.12240,702,245 - 240,726,481 (-)NCBI
Celera2223,441,822 - 223,476,423 (+)NCBICelera
Cytogenetic Map2q44NCBI
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
(-)-demecolcine  (ISO)
(-)-epigallocatechin 3-gallate  (ISO)
1,2-dichloroethane  (ISO)
1,2-dimethylhydrazine  (ISO)
1,4-benzoquinone  (ISO)
17beta-estradiol  (EXP,ISO)
17beta-estradiol 3-benzoate  (EXP)
2,3,7,8-tetrachlorodibenzodioxine  (ISO)
4,4'-sulfonyldiphenol  (ISO)
4-hydroxynon-2-enal  (ISO)
6alpha-methylprednisolone  (ISO)
8'-apo-beta,psi-caroten-8'-al  (ISO)
aconitine  (EXP)
aflatoxin B1  (ISO)
all-trans-retinoic acid  (ISO)
antirheumatic drug  (ISO)
arsane  (ISO)
arsenic atom  (ISO)
azathioprine  (ISO)
benzo[a]pyrene  (ISO)
benzo[a]pyrene diol epoxide I  (ISO)
Benzo[k]fluoranthene  (ISO)
beta-carotene  (ISO)
bis(2-chloroethyl) sulfide  (ISO)
bis(2-ethylhexyl) phthalate  (ISO)
bisphenol A  (EXP,ISO)
bisphenol F  (ISO)
butan-1-ol  (ISO)
calcitriol  (ISO)
carbon nanotube  (ISO)
chloroprene  (ISO)
chromium(6+)  (ISO)
cisplatin  (ISO)
cyclophosphamide  (ISO)
cyclosporin A  (ISO)
dexamethasone  (ISO)
diclofenac  (ISO)
divanadium pentaoxide  (ISO)
doxorubicin  (ISO)
elemental selenium  (ISO)
ethyl methanesulfonate  (ISO)
folic acid  (ISO)
formaldehyde  (ISO)
genistein  (ISO)
indometacin  (ISO)
isobutanol  (ISO)
lipopolysaccharide  (ISO)
lucanthone  (ISO)
LY294002  (ISO)
metformin  (EXP)
methotrexate  (ISO)
methylmercury chloride  (ISO)
N-acetyl-L-cysteine  (ISO)
N-nitrosodiethylamine  (ISO)
nickel atom  (ISO)
nickel dichloride  (ISO)
nickel sulfate  (ISO)
ochratoxin A  (ISO)
phenformin  (EXP)
piroxicam  (ISO)
potassium chromate  (ISO)
prednisolone  (ISO)
propanal  (ISO)
rotenone  (EXP)
selenium atom  (ISO)
silicon dioxide  (ISO)
sodium arsenate  (ISO)
sodium aurothiomalate  (ISO)
sodium dodecyl sulfate  (ISO)
succimer  (ISO)
tacrolimus hydrate  (ISO)
testosterone  (EXP,ISO)
testosterone enanthate  (ISO)
tetrachloromethane  (ISO)
triadimefon  (ISO)
tributylstannane  (ISO)
urethane  (ISO)
valproic acid  (ISO)
vincristine  (ISO)
vitamin E  (ISO)
zidovudine  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

References

Additional References at PubMed
PMID:3927587   PMID:10676968   PMID:16511497   PMID:17266443   PMID:18025219   PMID:19158679   PMID:21151871   PMID:21551061   PMID:22059445   PMID:22607347   PMID:24337748  


Genomics

Comparative Map Data
Gbp1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.22231,398,136 - 231,432,773 (+)NCBI
Rnor_6.0 Ensembl2248,398,917 - 248,409,570 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.02248,343,334 - 248,423,402 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.02266,908,013 - 266,948,528 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.42240,715,506 - 240,739,741 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.12240,702,245 - 240,726,481 (-)NCBI
Celera2223,441,822 - 223,476,423 (+)NCBICelera
Cytogenetic Map2q44NCBI
GBP1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl189,052,319 - 89,065,230 (-)EnsemblGRCh38hg38GRCh38
GRCh38.p13 Ensembl189,051,882 - 89,065,360 (-)EnsemblGRCh38hg38GRCh38
GRCh38189,052,319 - 89,065,208 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh37189,518,002 - 89,530,891 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36189,290,593 - 89,303,479 (-)NCBINCBI36hg18NCBI36
Build 34189,230,025 - 89,242,912NCBI
Celera187,763,799 - 87,776,851 (-)NCBI
Cytogenetic Map1p22.2NCBI
HuRef187,635,350 - 87,648,404 (-)NCBIHuRef
CHM1_1189,633,030 - 89,646,086 (-)NCBICHM1_1
Gbp2b
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm393142,300,577 - 142,324,940 (+)NCBIGRCm39mm39
GRCm39 Ensembl3142,300,608 - 142,324,940 (+)Ensembl
GRCm383142,594,816 - 142,619,179 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl3142,594,847 - 142,619,179 (+)EnsemblGRCm38mm10GRCm38
MGSCv373142,257,811 - 142,282,140 (+)NCBIGRCm37mm9NCBIm37
MGSCv363142,437,940 - 142,556,552 (+)NCBImm8
MGSCv363143,010,037 - 143,128,879 (+)NCBImm8
Cytogenetic Map3H1NCBI
cM Map366.69NCBI
GBP1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1659,378,069 - 59,393,388 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl659,273,592 - 59,393,229 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha662,090,305 - 62,103,758 (+)NCBI
ROS_Cfam_1.0659,893,027 - 59,906,504 (+)NCBI
UMICH_Zoey_3.1659,458,618 - 59,472,078 (+)NCBI
UNSW_CanFamBas_1.0659,413,802 - 59,427,260 (+)NCBI
UU_Cfam_GSD_1.0659,899,366 - 59,912,850 (+)NCBI


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1641891Alcrsp17Alcohol response QTL 17response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)2155965557254121739Rat
61398Bp50Blood pressure QTL 504.4arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2204585642249585642Rat
61366Iddm3Insulin dependent diabetes mellitus QTL 34.7blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)2204585642249585642Rat
2317752Glom23Glomerulus QTL 233.6urine protein amount (VT:0005160)urine protein level (CMO:0000591)2208594330263179188Rat
1598813Memor9Memory QTL 92.7exploratory behavior trait (VT:0010471)average horizontal distance in proximity to the target during voluntary locomotion in an experimental apparatus (CMO:0002674)2214870793251212353Rat
2298479Eau5Experimental allergic uveoretinitis QTL 50.0021uvea integrity trait (VT:0010551)experimental autoimmune uveitis score (CMO:0001504)2217498545254132424Rat
1598835Anxrr18Anxiety related response QTL 182.98body movement coordination trait (VT:0005424)number of rearing movements in an experimental apparatus (CMO:0001752)2217743855262743855Rat
2299161Iddm33Insulin dependent diabetes mellitus QTL 332.98blood glucose amount (VT:0000188)age at onset/diagnosis of type 1 diabetes mellitus (CMO:0001140)2221488355254121739Rat
1298075Scl17Serum cholesterol level QTL 173.4blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)2228712271266435125Rat
1549836Bss2Bone structure and strength QTL 27.5femur strength trait (VT:0010010)femur midshaft polar moment of inertia (CMO:0001669)2228712271266435125Rat
7207482Bss107Bone structure and strength QTL 1077femur strength trait (VT:0010010)femur ultimate force (CMO:0001675)2228712271266435125Rat
7207484Bss108Bone structure and strength QTL 1085.3femur strength trait (VT:0010010)femur total energy absorbed before break (CMO:0001677)2228712271266435125Rat
7207490Bss111Bone structure and strength QTL 1116.4femur morphology trait (VT:0000559)femur midshaft cortical cross-sectional area (CMO:0001663)2228712271266435125Rat
1300126Bp175Blood pressure QTL 1753.46arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)2229606682264899009Rat
2317885Alcrsp28Alcohol response QTL 282.10.63response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)2229793522266435125Rat
2313073Bmd75Bone mineral density QTL 754.10.0001tibia mineral mass (VT:1000283)total volumetric bone mineral density (CMO:0001728)2231224020254132424Rat
631514Scl8Serum cholesterol level QTL84.4blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)2231621666266435125Rat
8693697Alc36Alcohol consumption QTL 3620.592drinking behavior trait (VT:0001422)calculated ethanol drink intake rate (CMO:0001615)2233013605253626471Rat
1331767Hrtrt12Heart rate QTL 123.373heart pumping trait (VT:2000009)heart rate (CMO:0000002)2235289967257110527Rat
2293833Kiddil8Kidney dilation QTL 82.9kidney pelvis morphology trait (VT:0004194)hydronephrosis severity score (CMO:0001208)2236318496264899009Rat
2293844Kiddil7Kidney dilation QTL 73.5kidney pelvis morphology trait (VT:0004194)hydronephrosis severity score (CMO:0001208)2236318496264899009Rat
8693622Alc26Alcohol consumption QTL 262.40.667drinking behavior trait (VT:0001422)calculated ethanol drink intake rate (CMO:0001615)2237712398257579826Rat
9587428Epfw6Epididymal fat weight QTL 67.470.001epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)2240679103266435125Rat
7411555Bw132Body weight QTL 1320.001body mass (VT:0001259)body weight gain (CMO:0000420)2240679103266435125Rat
631563Hcuc3Hepatic copper content QTL 33.87hepatic copper amount (VT:0003065)liver copper weight to liver dry weight ratio (CMO:0001512)2245893572266435125Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:18
Count of miRNA genes:18
Interacting mature miRNAs:18
Transcripts:ENSRNOT00000045855
Prediction methods:Miranda, 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.


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 13 1
Low 6 18 5 17 5 6 8 12 19 8 10 6
Below cutoff 3 10 31 28 2 28 2 2 19 10 13 1 2

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000045855   ⟹   ENSRNOP00000046300
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl2248,398,917 - 248,409,570 (+)Ensembl
RefSeq Acc Id: XM_006224278   ⟹   XP_006224340
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Celera2223,441,822 - 223,476,423 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006233425   ⟹   XP_006233487
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.02248,384,504 - 248,423,402 (+)NCBI
Rnor_5.02266,908,013 - 266,948,528 (+)NCBI
Sequence:
RefSeq Acc Id: XM_008761538   ⟹   XP_008759760
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.02248,377,445 - 248,423,402 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017591353   ⟹   XP_017446842
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.22231,398,136 - 231,432,773 (+)NCBI
Rnor_6.02248,343,334 - 248,423,402 (+)NCBI
Sequence:
RefSeq Acc Id: XM_039103866   ⟹   XP_038959794
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.22231,399,471 - 231,432,773 (+)NCBI
Protein Sequences
Protein RefSeqs XP_017446842 (Get FASTA)   NCBI Sequence Viewer  
  XP_038959794 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: XP_006224340   ⟸   XM_006224278
- Sequence:
RefSeq Acc Id: XP_006233487   ⟸   XM_006233425
- Sequence:
RefSeq Acc Id: XP_008759760   ⟸   XM_008761538
- Sequence:
RefSeq Acc Id: XP_017446842   ⟸   XM_017591353
- Sequence:
RefSeq Acc Id: ENSRNOP00000046300   ⟸   ENSRNOT00000045855
RefSeq Acc Id: XP_038959794   ⟸   XM_039103866
Protein Domains
GB1/RHD3-type G

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)
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)
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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
Damaging Variants


Assembly: Rnor_5.0

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
2 266924212 266924213 A C snv BUF/MNa (KyushuU), M520/N (KNAW), GK/Ox (KNAW), FHH/EurMcwi (KNAW), MHS/Gib (KNAW), KFRS3B/Kyo (KyushuU), RCS/Kyo (KyushuU), LN/MavRrrc (KNAW), FHH/EurMcwi (MCW)
2 266927242 266927243 T A snv SS/JrHsdMcwi (MCW), SBN/Ygl (MCW), SBH/Ygl (MCW), ACI/EurMcwi (MCW), COP/CrCrl (MCW & UW), HWY/Slc (KyushuU), HTX/Kyo (KyushuU)
2 266927889 266927890 T C snv FHH/EurMcwi (MCW), KFRS3B/Kyo (KyushuU), BUF/MNa (KyushuU)
2 266927975 266927976 C A snv IS-Tlk/Kyo (KyushuU), IS/Kyo (KyushuU)
2 266928917 266928918 A C snv RCS/Kyo (KyushuU)


Assembly: Rnor_6.0

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
2 248399084 248399085 T G snv M520/N (MCW)
2 248399086 248399087 A C snv FHH/EurMcwi (RGD), GK/Ox (RGD), LN/MavRrrc (RGD), FHH/EurMcwi (MCW), MHS/Gib (RGD)
2 248402116 248402117 T A snv CDS, CDR, SS/JrHsdMcwi (MCW), SBH/Ygl (MCW), ACI/EurMcwi (MCW), COP/CrCrl (MCW & UW)
2 248402740 248402741 C T snv M520/N (MCW)
2 248402744 248402745 A G snv M520/N (MCW)
2 248402763 248402764 T C snv FHH/EurMcwi (MCW), MHS/Gib (RGD)
2 248402819 248402820 A G snv M520/N (MCW)
2 248407238 248407239 C G snv F344/NRrrc (MCW), Buf/N (MCW), ACI/N (MCW), WN/N (MCW), WKY/N (MCW), MR/N (MCW)
2 248410777 248410778 G A snv F344/NRrrc (MCW), WKY/N (MCW), ACI/N (MCW), Buf/N (MCW), WN/N (MCW), MR/N (MCW)
2 248411903 248411904 G A snv M520/N (MCW), F344/NRrrc (MCW), ACI/N (MCW), Buf/N (MCW), WKY/N (MCW), MR/N (MCW), WN/N (MCW)


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1311877 AgrOrtholog
Ensembl Genes ENSRNOG00000023943 Ensembl, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000046300 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000045855 UniProtKB/TrEMBL
InterPro G_GB1_RHD3_dom UniProtKB/TrEMBL
  GBP_C UniProtKB/TrEMBL
  Guanylate-bd/ATL_C UniProtKB/TrEMBL
  Guanylate-bd_C_sf UniProtKB/TrEMBL
  Guanylate-bd_N UniProtKB/TrEMBL
  P-loop_NTPase UniProtKB/TrEMBL
NCBI Gene 304266 ENTREZGENE
Pfam GBP UniProtKB/TrEMBL
  GBP_C UniProtKB/TrEMBL
PhenoGen Gbp1 PhenoGen
PROSITE G_GB1_RHD3 UniProtKB/TrEMBL
Superfamily-SCOP SSF48340 UniProtKB/TrEMBL
  SSF52540 UniProtKB/TrEMBL
UniProt D3ZKU6_RAT UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-01-27 Gbp1  guanylate binding protein 1  Gbp1  guanylate binding protein 1, interferon-inducible  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2011-09-29 Gbp1  guanylate binding protein 1, interferon-inducible  Gbp1  guanylate binding protein 1  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2011-04-27 Gbp1  guanylate binding protein 1  Gbp1  guanylate binding protein 1, interferon-inducible, 67kDa  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-04-30 Gbp1  guanylate binding protein 1, interferon-inducible, 67kDa   Gbp1_predicted  guanylate binding protein 1, interferon-inducible, 67kDa (predicted)  'predicted' is removed 2292626 APPROVED
2005-01-12 Gbp1_predicted  guanylate binding protein 1, interferon-inducible, 67kDa (predicted)      Symbol and Name status set to approved 70820 APPROVED