Hrg (histidine-rich glycoprotein) - Rat Genome Database
Submit Data |  Help |  Video Tutorials |  News |  Publications |  Download |  REST API |  Citing RGD |  Contact   
Gene: Hrg (histidine-rich glycoprotein) Rattus norvegicus
Analyze
Symbol: Hrg
Name: histidine-rich glycoprotein
RGD ID: 619808
Description: Predicted to have several functions, including heme binding activity; heparan sulfate proteoglycan binding activity; and heparin binding activity. Predicted to be involved in several processes, including defense response to other organism; negative regulation of endothelial cell migration; and negative regulation of fibrinolysis. Predicted to localize to cell surface; extracellular region; and lysosome. Human ortholog(s) of this gene implicated in thrombophilia due to HRG deficiency and thrombosis. Orthologous to human HRG (histidine rich glycoprotein); INTERACTS WITH (+)-schisandrin B; 2,6-dinitrotoluene; 3-chloropropane-1,2-diol.
Type: protein-coding
RefSeq Status: VALIDATED
Also known as: histidine-proline-rich glycoprotein; histidine-rich glycoprotein 1; HPRG; HRG1
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
mRatBN7.21178,054,488 - 78,069,402 (-)NCBI
Rnor_6.0 Ensembl1181,621,283 - 81,639,952 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.01181,621,274 - 81,639,938 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01184,718,226 - 84,736,651 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41180,248,578 - 80,264,179 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11180,306,169 - 80,321,768 (-)NCBI
Celera1176,927,058 - 76,941,902 (-)NCBICelera
Cytogenetic Map11q23NCBI
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
antimicrobial humoral immune response mediated by antimicrobial peptide  (IEA,ISO)
biological_process  (ND)
cytolysis by host of symbiont cells  (IEA,ISO)
defense response to fungus  (IEA,ISO,ISS)
fibrinolysis  (IEA)
heme export  (ISO)
heme transport  (IBA,ISO)
negative regulation of angiogenesis  (IEA,ISO,ISS)
negative regulation of blood vessel endothelial cell migration  (ISO,ISS)
negative regulation of cell adhesion  (ISO,ISS)
negative regulation of cell adhesion mediated by integrin  (IEA,ISO,ISS)
negative regulation of cell growth  (IEA,ISO,ISS)
negative regulation of cell population proliferation  (IEA,ISO,ISS)
negative regulation of endopeptidase activity  (IBA,IEA)
negative regulation of endothelial cell chemotaxis  (IEA,ISO,ISS)
negative regulation of fibrinolysis  (IBA,ISO)
negative regulation of lamellipodium assembly  (IEA,ISO,ISS)
negative regulation of vascular endothelial growth factor signaling pathway  (IEA,ISO,ISS)
platelet activation  (IEA,ISO,ISS)
positive regulation of apoptotic process  (IEA,ISO,ISS)
positive regulation of blood vessel remodeling  (IEA,ISO,ISS)
positive regulation of focal adhesion assembly  (IEA,ISO,ISS)
positive regulation of immune response to tumor cell  (IEA,ISO,ISS)
regulation of actin cytoskeleton organization  (IEA,ISO,ISS)
regulation of blood coagulation  (IEA,ISO,ISS)
regulation of gene expression  (IEA,ISO,ISS)
regulation of peptidyl-tyrosine phosphorylation  (IEA,ISO,ISS)
regulation of platelet activation  (IBA,ISO,ISS)
regulation of protein-containing complex assembly  (IEA,ISO,ISS)
regulation of transcription from RNA polymerase II promoter in response to iron  (ISO)
response to organic cyclic compound  (ISO)

Cellular Component

Molecular Function

References

Additional References at PubMed
PMID:678554   PMID:6740558   PMID:10514432   PMID:12477932   PMID:14744774   PMID:15138272   PMID:15220341   PMID:15869579   PMID:16436387   PMID:16489009   PMID:18797515   PMID:19056867  
PMID:19903770   PMID:21215706   PMID:21264222   PMID:21304106   PMID:22348394   PMID:22516433   PMID:23376485   PMID:23395172   PMID:23533145   PMID:27068509   PMID:31880188  


Genomics

Comparative Map Data
Hrg
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21178,054,488 - 78,069,402 (-)NCBI
Rnor_6.0 Ensembl1181,621,283 - 81,639,952 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.01181,621,274 - 81,639,938 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01184,718,226 - 84,736,651 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41180,248,578 - 80,264,179 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11180,306,169 - 80,321,768 (-)NCBI
Celera1176,927,058 - 76,941,902 (-)NCBICelera
Cytogenetic Map11q23NCBI
HRG
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl3186,660,216 - 186,678,240 (+)EnsemblGRCh38hg38GRCh38
GRCh38.p13 Ensembl3186,660,216 - 186,678,234 (+)EnsemblGRCh38hg38GRCh38
GRCh383186,665,975 - 186,678,235 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh373186,383,803 - 186,396,023 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 363187,866,492 - 187,878,717 (+)NCBINCBI36hg18NCBI36
Build 343187,866,499 - 187,878,724NCBI
Celera3184,820,230 - 184,832,456 (+)NCBI
Cytogenetic Map3q27.3NCBI
HuRef3183,793,470 - 183,805,692 (+)NCBIHuRef
CHM1_13186,347,695 - 186,359,980 (+)NCBICHM1_1
Hrg
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391622,769,822 - 22,780,409 (+)NCBIGRCm39mm39
GRCm39 Ensembl1622,769,822 - 22,780,406 (+)Ensembl
GRCm381622,951,072 - 22,961,659 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1622,951,072 - 22,961,656 (+)EnsemblGRCm38mm10GRCm38
MGSCv371622,951,145 - 22,961,732 (+)NCBIGRCm37mm9NCBIm37
MGSCv361622,866,448 - 22,876,980 (+)NCBImm8
Celera1623,511,005 - 23,521,593 (+)NCBICelera
Cytogenetic Map16B1NCBI
cM Map1613.79NCBI
Hrg
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495542021,019,212 - 21,032,976 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495542021,020,938 - 21,033,022 (-)NCBIChiLan1.0ChiLan1.0
HRG
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.13192,168,299 - 192,180,539 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl3192,168,299 - 192,180,539 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v03183,701,069 - 183,712,365 (+)NCBIMhudiblu_PPA_v0panPan3
HRG
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1 Ensembl3419,276,549 - 19,286,537 (+)EnsemblCanFam3.1canFam3CanFam3.1
CanFam3.13419,276,487 - 19,286,540 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Hrg
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
SpeTri2.0NW_0049365783,285,986 - 3,295,876 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
HRG
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl13124,505,303 - 124,516,384 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.113124,505,305 - 124,516,387 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.213133,895,233 - 133,906,338 (+)NCBISscrofa10.2Sscrofa10.2susScr3
HRG
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1152,753,819 - 2,766,946 (-)NCBI
ChlSab1.1 Ensembl152,753,810 - 2,766,478 (-)Ensembl
Hrg
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462473070,070,302 - 70,086,256 (-)NCBI

Position Markers
RH130910  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.01181,621,402 - 81,621,602NCBIRnor6.0
Rnor_5.01184,718,354 - 84,718,554UniSTSRnor5.0
RGSC_v3.41180,248,706 - 80,248,906UniSTSRGSC3.4
RGSC_v3.41180,230,715 - 80,230,915UniSTSRGSC3.4
Celera1176,912,075 - 76,912,275UniSTS
Celera1176,927,186 - 76,927,386UniSTS
RH 3.4 Map11642.2UniSTS
Cytogenetic Map11q23UniSTS


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
724554Iddm17Insulin dependent diabetes mellitus QTL 170.001blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)111901627290463843Rat
724563Uae10Urinary albumin excretion QTL 106urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)112831466586994795Rat
1300110Stl7Serum triglyceride level QTL 74.64blood triglyceride amount (VT:0002644)plasma triglyceride level (CMO:0000548)113043533986714631Rat
2298551Neuinf10Neuroinflammation QTL 103.7nervous system integrity trait (VT:0010566)spinal cord beta-2 microglobulin mRNA level (CMO:0002125)113215552082443118Rat
1300135Rf19Renal function QTL 193.38blood creatinine amount (VT:0005328)creatinine clearance (CMO:0000765)114309033886714631Rat
2312566Glom20Glomerulus QTL 203.60.001kidney glomerulus morphology trait (VT:0005325)index of glomerular damage (CMO:0001135)114658320986714631Rat
1581565Pur10Proteinuria QTL 100.0001urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)114726402386994547Rat
1581572Uae35Urinary albumin excretion QTL 350.0001urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)114726402386994547Rat
724561Plsm4Polydactyly-luxate syndrome (PLS) morphotypes QTL 40.0003forelimb integrity trait (VT:0010562)front foot phalanges count (CMO:0001947)115785881090463843Rat
7411658Foco27Food consumption QTL 2716.20.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)115994302390463843Rat
4889521Gluco62Glucose level QTL 622.820.001blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)116010984287141948Rat
631506Bp104Blood pressure QTL 1042.8arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)116265336586714475Rat
70208Niddm22Non-insulin dependent diabetes mellitus QTL 223.61blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)116265336586714483Rat
10058954Gmadr7Adrenal mass QTL 72.490.0049adrenal gland mass (VT:0010420)both adrenal glands wet weight to body weight ratio (CMO:0002411)116449467190463843Rat
1549848Bvd6Brain ventricular dilatation QTL 63.10.0001brain ventricle morphology trait (VT:0000822)hydrocephalus severity score (CMO:0001881)116934231986312439Rat
1354593Stl12Serum triglyceride level QTL 123.36blood triglyceride amount (VT:0002644)serum triglyceride level (CMO:0000360)116964970890463843Rat
1354656Bvd3Brain ventricular dilatation QTL 33.640.001brain ventricle morphology trait (VT:0000822)hydrocephalus severity score (CMO:0001881)117272002986994795Rat
10450831Scl80Serum cholesterol level QTL 804.70.01blood LDL cholesterol amount (VT:0000181)blood low density lipoprotein cholesterol level (CMO:0000053)118035840887200449Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:56
Count of miRNA genes:55
Interacting mature miRNAs:56
Transcripts:ENSRNOT00000047595
Prediction methods:Microtar, 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

circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system appendage
High 21 21 21
Medium 18 16 16 7 2 1
Low 5 17 4 14 4 7 7 7 16 8 7 7
Below cutoff 5 1 4 1 2 14 10 17 1

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000047595   ⟹   ENSRNOP00000049290
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1181,621,346 - 81,639,872 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000081864   ⟹   ENSRNOP00000072623
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1181,621,283 - 81,639,952 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000090031   ⟹   ENSRNOP00000075182
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1181,621,325 - 81,639,876 (-)Ensembl
RefSeq Acc Id: NM_133428   ⟹   NP_596919
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21178,054,494 - 78,069,389 (-)NCBI
Rnor_6.01181,621,274 - 81,639,923 (-)NCBI
Rnor_5.01184,718,226 - 84,736,651 (-)NCBI
RGSC_v3.41180,248,578 - 80,264,179 (-)RGD
Celera1176,927,058 - 76,941,902 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017597864   ⟹   XP_017453353
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21178,054,488 - 78,069,402 (-)NCBI
Rnor_6.01181,621,274 - 81,639,938 (-)NCBI
Sequence:
Protein Sequences
Protein RefSeqs NP_596919 (Get FASTA)   NCBI Sequence Viewer  
  XP_017453353 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAH89779 (Get FASTA)   NCBI Sequence Viewer  
  BAB33092 (Get FASTA)   NCBI Sequence Viewer  
  Q99PS8 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: NP_596919   ⟸   NM_133428
- Peptide Label: precursor
- UniProtKB: Q99PS8 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_017453353   ⟸   XM_017597864
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: ENSRNOP00000075182   ⟸   ENSRNOT00000090031
RefSeq Acc Id: ENSRNOP00000049290   ⟸   ENSRNOT00000047595
RefSeq Acc Id: ENSRNOP00000072623   ⟸   ENSRNOT00000081864
Protein Domains
Cystatin

Transcriptome

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

Promoters
RGD ID:13698250
Promoter ID:EPDNEW_R8773
Type:multiple initiation site
Name:Hrg_1
Description:histidine-rich glycoprotein
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_6.01181,639,923 - 81,639,983EPDNEW

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)
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
SR/JrHsd (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: Harlan Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SR/JrHsd (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
SS/Jr (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
SS/JrHsdMcwi (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)
SS/JrHsdMcwi (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
WAG/Rij (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
WKY/Gcrc (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
WKY/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
WKY/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
WKY/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
WN/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
Damaging Variants


Assembly: Rnor_6.0

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
11 81621773 81621774 T C snv F344/NRrrc (MCW)
11 81621906 81621907 C T snv F344/NRrrc (MCW)
11 81621938 81621939 T C snv F344/NRrrc (MCW), F344/NCrl (RGD), F344/NRrrc (MCW), Buf/N (MCW)
11 81625142 81625143 G C snv F344/NRrrc (MCW), F344/NCrl (RGD), LE/Stm (RGD), SBH/Ygl (RGD)
11 81625143 81625144 C T snv F344/NCrl (RGD), LE/Stm (RGD), SBH/Ygl (RGD)
11 81637666 81637667 T A snv WKY/NCrl (RGD), WKY/Gcrc (RGD), SR/JrHsd (RGD), SHRSP/Gcrc (RGD), SHR/NHsd (RGD), SBN/Ygl (RGD), MNS/Gib (RGD), MHS/Gib (RGD), LL/MavRrrc (RGD), LN/MavRrrc (RGD), LH/MavRrrc (RGD), WKY/NHsd (RGD), LEW/Crl (RGD), F344/NCrl (RGD), BBDP/Wor (RGD), LEW/NCrlBR (RGD)


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:619808 AgrOrtholog
Ensembl Genes ENSRNOG00000001809 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000049290 UniProtKB/Swiss-Prot
  ENSRNOP00000072623 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOP00000075182 ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000047595 UniProtKB/Swiss-Prot
  ENSRNOT00000081864 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOT00000090031 UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7371893 IMAGE-MGC_LOAD
InterPro Cystatin_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:171016 UniProtKB/Swiss-Prot
  rno:681544 UniProtKB/Swiss-Prot
MGC_CLONE MGC:108609 IMAGE-MGC_LOAD
NCBI Gene 171016 ENTREZGENE
PhenoGen Hrg PhenoGen
SMART SM00043 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt A0A0G2K3G0_RAT UniProtKB/TrEMBL
  A0A0G2K9Y5_RAT UniProtKB/TrEMBL
  HRG_RAT UniProtKB/Swiss-Prot, ENTREZGENE
UniProt Secondary D3ZJN0 UniProtKB/Swiss-Prot
  Q99PS7 UniProtKB/Swiss-Prot
  Q9ESB2 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2004-02-26 Hrg  histidine-rich glycoprotein      Symbol and Name status set to approved 625702 APPROVED
2002-08-07 Hrg  histidine-rich glycoprotein      Symbol and Name status set to provisional 70820 PROVISIONAL

RGD Curation Notes
Note Type Note Reference
gene_protein contains 510 amino acids 632990