C4bpa (complement component 4 binding protein, alpha) - Rat Genome Database

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Gene: C4bpa (complement component 4 binding protein, alpha) Rattus norvegicus
Analyze
Symbol: C4bpa
Name: complement component 4 binding protein, alpha
RGD ID: 2235
Description: Predicted to enable complement binding activity. Predicted to be involved in several processes, including negative regulation of complement activation, classical pathway; regulation of opsonization; and response to symbiotic bacterium. Predicted to act upstream of or within binding activity of sperm to zona pellucida. Predicted to be located in acrosomal vesicle; cell body; and plasma membrane. Predicted to be part of zona pellucida receptor complex. Predicted to be active in extracellular space. Human ortholog(s) of this gene implicated in COVID-19. Orthologous to human C4BPA (complement component 4 binding protein alpha); PARTICIPATES IN coagulation cascade pathway; complement system pathway; INTERACTS WITH 1-naphthyl isothiocyanate; 2,3,7,8-tetrachlorodibenzodioxine; 2,4-dinitrotoluene.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: C4b-binding protein alpha chain; C4BP; MGC108761
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Pig
Green Monkey
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21342,075,715 - 42,111,205 (-)NCBImRatBN7.2
mRatBN7.2 Ensembl1342,075,717 - 42,111,205 (-)Ensembl
Rnor_6.01347,342,090 - 47,377,580 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1347,342,079 - 47,377,703 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01352,430,754 - 52,466,244 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41343,552,947 - 43,588,565 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11343,567,082 - 43,598,278 (-)NCBI
Celera1342,426,949 - 42,461,963 (-)NCBICelera
RH 3.4 Map13109.8RGD
Cytogenetic Map13q13NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
1-naphthyl isothiocyanate  (EXP)
17beta-estradiol  (ISO)
2,2',4,4'-Tetrabromodiphenyl ether  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,4,6-tribromophenol  (ISO)
2,4-dinitrotoluene  (EXP)
2,6-dinitrotoluene  (EXP)
2-acetamidofluorene  (EXP)
3,3',5,5'-tetrabromobisphenol A  (ISO)
5-methoxy-2-\{[(4-methoxy-3,5-dimethylpyridin-2-yl)methyl]sulfinyl\}-1H-benzimidazole  (EXP)
6-propyl-2-thiouracil  (EXP)
acetamide  (EXP)
Actein  (EXP)
aflatoxin B1  (ISO)
amiodarone  (EXP)
ammonium chloride  (EXP)
benzbromarone  (EXP)
benzo[a]pyrene  (ISO)
bexarotene  (EXP)
bisphenol A  (EXP,ISO)
cadmium atom  (ISO)
carbon nanotube  (EXP)
clofibrate  (EXP)
cobalt dichloride  (EXP)
copper atom  (ISO)
copper(0)  (ISO)
cyclosporin A  (ISO)
decabromodiphenyl ether  (ISO)
dicrotophos  (ISO)
endosulfan  (EXP)
flutamide  (EXP)
furan  (EXP)
genistein  (ISO)
graphite  (EXP)
hexachlorobenzene  (EXP)
L-ethionine  (EXP)
lansoprazole  (EXP)
manganese(II) chloride  (EXP)
methapyrilene  (EXP)
N-methyl-4-phenylpyridinium  (EXP)
nickel atom  (ISO)
nitrofen  (EXP)
O-methyleugenol  (ISO)
omeprazole  (EXP)
ozone  (EXP)
pantoprazole  (EXP)
paracetamol  (ISO)
perfluorooctanoic acid  (EXP)
pirinixic acid  (EXP)
potassium dichromate  (ISO)
propanal  (ISO)
quartz  (EXP)
quercetin  (ISO)
rabeprazole  (EXP)
silicon dioxide  (EXP,ISO)
sodium arsenite  (ISO)
sodium fluoride  (ISO)
sulforaphane  (ISO)
tetrachloromethane  (EXP)
thioacetamide  (EXP)
titanium dioxide  (EXP)
trichloroethene  (EXP)
ursodeoxycholic acid  (ISO)
valproic acid  (ISO)
zinc atom  (ISO)
zinc(0)  (ISO)
zoledronic acid  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
References

Additional References at PubMed
PMID:7604284   PMID:9013975   PMID:9890753   PMID:11133656   PMID:11417900   PMID:11784086   PMID:12477932   PMID:14607961   PMID:16502470   PMID:16540102   PMID:21640725   PMID:21880732  
PMID:22333221   PMID:22516433   PMID:22658674   PMID:23976951  


Genomics

Comparative Map Data
C4bpa
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21342,075,715 - 42,111,205 (-)NCBImRatBN7.2
mRatBN7.2 Ensembl1342,075,717 - 42,111,205 (-)Ensembl
Rnor_6.01347,342,090 - 47,377,580 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1347,342,079 - 47,377,703 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01352,430,754 - 52,466,244 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41343,552,947 - 43,588,565 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11343,567,082 - 43,598,278 (-)NCBI
Celera1342,426,949 - 42,461,963 (-)NCBICelera
RH 3.4 Map13109.8RGD
Cytogenetic Map13q13NCBI
C4BPA
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381207,104,233 - 207,144,972 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p13 Ensembl1207,104,233 - 207,144,972 (+)EnsemblGRCh38hg38GRCh38
GRCh371207,277,578 - 207,318,317 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361205,344,230 - 205,384,940 (+)NCBINCBI36hg18NCBI36
Build 341203,666,001 - 203,706,701NCBI
Celera1180,529,170 - 180,570,903 (+)NCBI
Cytogenetic Map1q32.2NCBI
HuRef1177,975,014 - 178,014,972 (+)NCBIHuRef
CHM1_11208,550,269 - 208,591,017 (+)NCBICHM1_1
Zp3r
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391130,474,847 - 130,557,371 (-)NCBIGRCm39mm39
GRCm39 Ensembl1130,504,450 - 130,557,358 (-)Ensembl
GRCm381130,547,110 - 130,629,634 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1130,576,713 - 130,629,621 (-)EnsemblGRCm38mm10GRCm38
MGSCv371132,473,283 - 132,526,183 (-)NCBIGRCm37mm9NCBIm37
MGSCv361132,404,259 - 132,457,141 (-)NCBImm8
Celera1133,204,292 - 133,253,007 (-)NCBICelera
Cytogenetic Map1E4NCBI
cM Map156.89NCBI
C4bpa
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495540642,613,607 - 42,641,670 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495540642,613,659 - 42,641,918 (+)NCBIChiLan1.0ChiLan1.0
C4BPA
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.11186,985,220 - 187,025,898 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1186,985,264 - 187,025,898 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v01182,707,221 - 182,747,878 (+)NCBIMhudiblu_PPA_v0panPan3
C4BPA
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.176,239,036 - 6,268,934 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl76,241,102 - 6,268,910 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha75,802,297 - 5,832,192 (+)NCBI
ROS_Cfam_1.075,927,762 - 5,957,518 (+)NCBI
UMICH_Zoey_3.175,861,425 - 5,891,162 (+)NCBI
UNSW_CanFamBas_1.075,962,886 - 5,992,819 (+)NCBI
UU_Cfam_GSD_1.076,003,175 - 6,033,127 (+)NCBI
C4BPA
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl967,726,154 - 67,829,220 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1967,726,159 - 67,774,369 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2974,106,142 - 74,154,500 (+)NCBISscrofa10.2Sscrofa10.2susScr3
C4BPA
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12522,169,355 - 22,254,331 (-)NCBIChlSab1.1chlSab2
Vero_WHO_p1.0NW_02366605522,832,939 - 22,844,116 (-)NCBIVero_WHO_p1.0

Position Markers
RH94833  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21342,075,847 - 42,075,959 (+)MAPPERmRatBN7.2
Rnor_6.01347,342,223 - 47,342,334NCBIRnor6.0
Rnor_5.01352,430,887 - 52,430,998UniSTSRnor5.0
RGSC_v3.41343,553,080 - 43,553,191UniSTSRGSC3.4
Celera1342,427,082 - 42,427,193UniSTS
RH 3.4 Map13109.8UniSTS
Cytogenetic Map13q13UniSTS
RH94834  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21342,075,852 - 42,075,947 (+)MAPPERmRatBN7.2
Rnor_6.01347,342,228 - 47,342,322NCBIRnor6.0
Rnor_5.01352,430,892 - 52,430,986UniSTSRnor5.0
RGSC_v3.41343,553,085 - 43,553,179UniSTSRGSC3.4
Celera1342,427,087 - 42,427,181UniSTS
Cytogenetic Map13q13UniSTS


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
2303032Bp328Blood pressure QTL 328arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)134118402245417941Rat
70181BpQTLcluster11Blood pressure QTL cluster 116.922arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)133124133193395974Rat
70181BpQTLcluster11Blood pressure QTL cluster 116.922arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)133124133193395974Rat
70181BpQTLcluster11Blood pressure QTL cluster 116.922arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)133124133193395974Rat
70181BpQTLcluster11Blood pressure QTL cluster 116.922arterial blood pressure trait (VT:2000000)absolute change in mean arterial blood pressure (CMO:0000533)133124133193395974Rat
70220Bp55Blood pressure QTL 555.75arterial blood pressure trait (VT:2000000)blood pressure measurement (CMO:0000003)133737450982374509Rat
619615Bp80Blood pressure QTL 800.0354arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)133975454484754544Rat
2303563Bw89Body weight QTL 896body mass (VT:0001259)body weight (CMO:0000012)133228447177284471Rat
70170Eae14Experimental allergic encephalomyelitis QTL 140.0024nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis incidence/prevalence measurement (CMO:0001046)132320344868203448Rat
1331750Bp220Blood pressure QTL 2202.98arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)133741558482415584Rat
631645Bp121Blood pressure QTL 1213.3arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)131491565559915655Rat
1331784Bp222Blood pressure QTL 2222.944arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)131769443653050594Rat
1581554Pur11Proteinuria QTL 11urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)13599483377046787Rat
738036Lnnr4Liver neoplastic nodule remodeling QTL 43.64liver integrity trait (VT:0010547)liver remodeling tumorous lesion number (CMO:0001461)13142356786Rat
1581570Eae17Experimental allergic encephalomyelitis QTL 174.1nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis incidence/prevalence measurement (CMO:0001046)138897350101631289Rat
1581573Uae36Urinary albumin excretion QTL 36urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)13599483377046787Rat
1300163Cardf1Cardiac cell morphology QTL 14.18aorta morphology trait (VT:0000272)artery lesion measurement (CMO:0000975)131192944945417941Rat
1354621Rf47Renal function QTL 473.7kidney renin amount (VT:0010559)kidney renin level (CMO:0002166)1330395351101056920Rat
2301962Cm72Cardiac mass QTL 724.12heart left ventricle mass (VT:0007031)heart left ventricle weight (CMO:0000776)133124133158363171Rat
1354666Bp244Blood pressure QTL 2444.9arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)131101056920Rat
1354666Bp244Blood pressure QTL 2444.9arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)131101056920Rat
1354666Bp244Blood pressure QTL 2444.9arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)131101056920Rat
1549897Stresp12Stress response QTL 123.35stress-related behavior trait (VT:0010451)number of approaches toward negative stimulus before onset of defensive burying response (CMO:0001960)133843340883433408Rat
1558644Cm45Cardiac mass QTL 453.60.002heart mass (VT:0007028)heart wet weight (CMO:0000069)132369296968692969Rat
2317040Aia21Adjuvant induced arthritis QTL 212.75joint integrity trait (VT:0010548)left rear ankle joint diameter (CMO:0002149)13983154154831541Rat
2317046Aia8Adjuvant induced arthritis QTL 83.9700000286102295joint integrity trait (VT:0010548)left rear ankle joint diameter (CMO:0002149)13983154154831541Rat
2302275Gluco37Glucose level QTL 373.8blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)131192944946193066Rat
61339Bp24Blood pressure QTL 240.05arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)13599466844807491Rat
61340Bp25Blood pressure QTL 254.20.004arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)133453521879535218Rat
61349Bp31Blood pressure QTL 315.75arterial blood pressure trait (VT:2000000)blood pressure measurement (CMO:0000003)133737450982374509Rat
61391Bp5Blood pressure QTL 55.6arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)132230187567301875Rat
4889861Pur29Proteinuria QTL 2913.80.005total urine protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)133741558480753406Rat
6893338Cm76Cardiac mass QTL 7600.99heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)132369296968692969Rat
7411662Foco29Food consumption QTL 2920.80.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)13931346554313465Rat
9589164Gluco66Glucose level QTL 666.670.001blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)131515872260158722Rat
7207885Glom27Glomerulus QTL 273.9kidney glomerulus integrity trait (VT:0010546)kidney crescentic glomeruli count to kidney normal glomeruli count ratio (CMO:0002139)1320605871101339738Rat
9589141Insul28Insulin level QTL 2810.820.001blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)13931346554313465Rat
12879477Bp401Blood pressure QTL 401arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)133726209282262092Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:26
Count of miRNA genes:19
Interacting mature miRNAs:24
Transcripts:ENSRNOT00000005461
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

circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system appendage
High 2 2 2
Medium 35 35 35 1 9
Low 3 15 4 8 4 3 3 8 5 9 2 3
Below cutoff 10 5 8 5 6 29 25 24 5

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000005461   ⟹   ENSRNOP00000005461
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1342,075,717 - 42,111,205 (-)Ensembl
Rnor_6.0 Ensembl1347,342,079 - 47,377,703 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000113710   ⟹   ENSRNOP00000081096
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1342,075,717 - 42,111,205 (-)Ensembl
RefSeq Acc Id: NM_012516   ⟹   NP_036648
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21342,075,715 - 42,111,205 (-)NCBI
Rnor_6.01347,342,090 - 47,377,580 (-)NCBI
Rnor_5.01352,430,754 - 52,466,244 (-)NCBI
RGSC_v3.41343,552,947 - 43,588,565 (-)RGD
Celera1342,426,949 - 42,461,963 (-)RGD
Sequence:
RefSeq Acc Id: XM_039090318   ⟹   XP_038946246
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21342,075,796 - 42,099,373 (-)NCBI
Reference Sequences
RefSeq Acc Id: NP_036648   ⟸   NM_012516
- UniProtKB: Q5M891 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000005461   ⟸   ENSRNOT00000005461
RefSeq Acc Id: XP_038946246   ⟸   XM_039090318
- Peptide Label: isoform X1
RefSeq Acc Id: ENSRNOP00000081096   ⟸   ENSRNOT00000113710
Protein Domains
Sushi

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q63514-F1-model_v2 AlphaFold Q63514 1-558 view protein structure

Transcriptome

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

Promoters
RGD ID:13698784
Promoter ID:EPDNEW_R9309
Type:initiation region
Name:C4bpa_1
Description:complement component 4 binding protein, alpha
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_6.01347,377,591 - 47,377,651EPDNEW

Strain Variation

Strain Sequence Variants (MRatBN7.2)
ACI/EurMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
ACI/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN-Lx/CubMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/NHsdMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/NHsdMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/SsN (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BUF/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BXH2/CubMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BXH3/CubMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
DA/OlaHsd (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/DuCrl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/NCrl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/Stm (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FHH/EurMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FXLE16/Stm (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FXLE18/Stm (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
GK/FarMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB10/IpcvMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB2/IpcvMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB20/IpcvMcwi (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB31/IpcvMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB4/IpcvMcwi (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LE/Stm (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEW/Crl (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF10A/StmMcwi (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF11/Stm (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF1A/Stm (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF1C/Stm (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF2B/Stm (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF3/Stm (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF4/Stm (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LH/MavRrrcAek (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LL/MavRrrcAek (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LN/MavRrrcAek (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
M520/N (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
M520/NRrrcMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
MR/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
MWF/Hsd (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
PVG/Seac (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SHR/OlalpcvMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SHRSP/A3NCrl (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SR/JrHsd (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SS/JrHsdMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WAG/RijCrl (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/N (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/NCrl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WN/N (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
Damaging Variants


Assembly: Rnor_6.0

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
13 47350638 47350639 G A snv FHH/EurMcwi (MCW), LEXF1C/Stm (2019), GH/OmrMcwi (MCW), SBN/Ygl (MCW), SR/JrHsd (MCW), SS/JrHsdMcwi (MCW), F344/NRrrc (MCW), M520/N (MCW), FHH/EurMcwi (RGD), FHL/EurMcwi (RGD), GK/Ox (RGD), LL/MavRrrc (RGD), SBN/Ygl (RGD), SHR/NHsd (RGD), SHRSP/Gcrc (RGD), SR/JrHsd (RGD), SS/Jr (RGD), SS/JrHsdMcwi (RGD), WKY/Gcrc (RGD), F344/DuCrl (2019), F344/N (2020), F344/Stm (2019), FHH/EurMcwi (2019), FXLE16/Stm (2020), GK/FarMcwi (2019), HXB10/IpcvMcwi (2019), LEXF1A/Stm (2019), LEXF2B/Stm (2019), LEXF3/Stm (2020), LH/MavRrrcAek (2020), LL/MavRrrcAek (2020), LN/MavRrrcAek (2020), M520/N (2020), PVG/Seac (2019), SHRSP/A3NCrl (2019), SHR/OlalpcvMcwi (2019), SR/JrHsd (2020), SS/JrHsdMcwi (2019), M520/NRrrcMcwi (2019), COP/CrCrl (MCW & UW), SBH/Ygl (MCW), F344/NCrl (RGD), SBH/Ygl (RGD), BXH2/CubMcwi (2020), F344/NCrl (2019), HXB20/IpcvMcwi (2020), HXB2/IpcvMcwi (2019), HXB31/IpcvMcwi (2019), HXB4/IpcvMcwi (2020), FHL/EurMcwi (MCW)


Assembly: Rnor_5.0

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
13 52439302 52439303 G A snv COP/CrCrl (MCW & UW), BDIX.Cg-Tal/NemOda (KyushuU), FHL/EurMcwi (MCW), GH/OmrMcwi (MCW), SBH/Ygl (MCW), SBN/Ygl (MCW), SR/JrHsd (MCW), SS/JrHsdMcwi (MCW), LH/MavRrrc (KNAW), LL/MavRrrc (KNAW), LN/MavRrrc (KNAW), SR/JrHsd (KNAW), SS/Jr (KNAW), SS/JrHsdMcwi (KNAW), F344/NRrrc (SOLiD) (KNAW), F344/NCrl (KNAW), F344/NHsd (KNAW), FHH/EurMcwi (KNAW), FHL/EurMcwi (KNAW), GK/Ox (KNAW), M520/N (KNAW), SBH/Ygl (KNAW), SBN/Ygl (KNAW), SHR/NCrlPrin (KNAW), SHR/NHsd (KNAW), SHR/OlaIpcv (KNAW), SHR/OlaIpcvPrin (KNAW), SHRSP/Gcrc (KNAW), F344/NRrrc (Illumina) (KNAW), WKY/Gcrc (KNAW), LE/OrlBarth (UDEL), Crl:SD (UDEL), IS/Kyo (KyushuU), BUF/MNa (KyushuU), NIG-III/Hok (KyushuU), F344/DuCrlCrlj (KyushuU), F344/NSlc (KyushuU), RCS/Kyo (KyushuU), IS-Tlk/Kyo (KyushuU), F344/Stm (KyushuU), F344/Jcl (KyushuU), BDIX/NemOda (KyushuU), DOB/Oda (KyushuU), FHH/EurMcwi (MCW)
13 52461831 52461832 C T snv SDLEF7/Barth (UDEL), LE/OrlBarth (UDEL), Crl:SD (UDEL), NIG-III/Hok (KyushuU), LE/Stm (KyushuU), BN/SsNSlc (KyushuU), RCS/Kyo (KyushuU), IS-Tlk/Kyo (KyushuU), HWY/Slc (KyushuU), DOB/Oda (KyushuU)
13 52461849 52461850 G A snv IS-Tlk/Kyo (KyushuU), RCS/Kyo (KyushuU), HTX/Kyo (KyushuU), LE/Stm (KyushuU), DOB/Oda (KyushuU), Crl:SD (UDEL), LE/OrlBarth (UDEL), SDLEF7/Barth (UDEL), NIG-III/Hok (KyushuU)
13 52461863 52461864 C T snv DOB/Oda (KyushuU), HWY/Slc (KyushuU), IS-Tlk/Kyo (KyushuU), RCS/Kyo (KyushuU), LE/Stm (KyushuU), NIG-III/Hok (KyushuU), Crl:SD (UDEL), SDLEF7/Barth (UDEL), LE/OrlBarth (UDEL)
13 52461902 52461903 G A snv HWY/Slc (KyushuU), DOB/Oda (KyushuU), IS-Tlk/Kyo (KyushuU), BN/SsNSlc (KyushuU), LE/Stm (KyushuU), NIG-III/Hok (KyushuU), Crl:SD (UDEL), LE/OrlBarth (UDEL), SDLEF7/Barth (UDEL)
13 52461962 52461963 G T snv LE/OrlBarth (UDEL), Crl:SD (UDEL), LE/Stm (KyushuU), BN/SsNSlc (KyushuU), DOB/Oda (KyushuU), SDLEF7/Barth (UDEL)
13 52461994 52461995 C T snv LE/OrlBarth (UDEL), Crl:SD (UDEL), BDIX.Cg-Tal/NemOda (KyushuU), LE/Stm (KyushuU), BUF/MNa (KyushuU), SDLEF7/Barth (UDEL)


Assembly: RGSC_v3.4

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
13 43561495 43561496 G A snv SS/JrHsdMcwi (ICL), SS/Jr (ICL), FHH/EurMcwi (MCW), FHL/EurMcwi (MCW), SR/JrHsd (MCW), SS/JrHsdMcwi (MCW), SHR/OlaIpcv (ICL), FHH/EurMcwi (MDC), SHRSP/Gcrc (MDC), SS/JrHsdMcwi (MDC), F344/NRrrc (KNAW), M520/N (KNAW), SHR/OlaIpcv (KNAW), COP/CrCrl (MCW & UW), GH/OmrMcwi (MCW), F344/NCrl (ICL), FHH/EurMcwi (ICL), FHL/EurMcwi (ICL), GK/Ox (ICL), LH/MavRrrc (ICL), LL/MavRrrc (ICL), LN/MavRrrc (ICL), SBH/Ygl (ICL), SBN/Ygl (ICL), SHR/OlaIpcv (ICL), SHR/NHsd (ICL), SHRSP/Gcrc (ICL), SR/JrHsd (ICL), WKY/Gcrc (ICL)
13 43584170 43584171 G A snv HCR/1Mco (UMich), LCR/1Mco (UMich)
13 43584184 43584185 C T snv HCR/1Mco (UMich), LCR/1Mco (UMich)
13 43584223 43584224 G A snv HCR/1Mco (UMich)


Assembly: mRatBN7.2

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
13 42084263 42084264 G A snv BXH2/CubMcwi (2020), SS/JrHsdMcwi (2019), F344/NCrl (2019), F344/N (2020), F344/Stm (2019), FHH/EurMcwi (2019), FXLE16/Stm (2020), GK/FarMcwi (2019), HXB10/IpcvMcwi (2019), HXB20/IpcvMcwi (2020), HXB2/IpcvMcwi (2019), HXB31/IpcvMcwi (2019), HXB4/IpcvMcwi (2020), LEXF1A/Stm (2019), LEXF1C/Stm (2019), LEXF2B/Stm (2019), LEXF3/Stm (2020), LH/MavRrrcAek (2020), LL/MavRrrcAek (2020), LN/MavRrrcAek (2020), M520/NRrrcMcwi (2019), M520/N (2020), PVG/Seac (2019), SHRSP/A3NCrl (2019), SHR/OlalpcvMcwi (2019), SR/JrHsd (2020), F344/DuCrl (2019)


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:2235 AgrOrtholog
BioCyc Gene G2FUF-18372 BioCyc
Ensembl Genes ENSRNOG00000004062 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000005461 ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000005461 ENTREZGENE, UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7324823 IMAGE-MGC_LOAD
InterPro C4bp_oligo UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Sushi/SCR/CCP_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Sushi_SCR_CCP_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:24235 UniProtKB/TrEMBL
MGC_CLONE MGC:108761 IMAGE-MGC_LOAD
NCBI Gene 24235 ENTREZGENE
Pfam C4bp_oligo UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Sushi UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen C4bpa PhenoGen
PROSITE SUSHI UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
SMART CCP UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF57535 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
TIGR TC223559
UniProt A9CME3_RAT UniProtKB/TrEMBL
  C4BPA_RAT UniProtKB/Swiss-Prot
  Q5M891 ENTREZGENE, UniProtKB/TrEMBL
  Q63514 ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2002-06-10 C4bpa  Complement component 4 binding protein, alpha      Symbol and Name status set to approved 70586 APPROVED

RGD Curation Notes
Note Type Note Reference
gene_process key regulatory protein of the complement system and involved in immune function 634674
gene_regulation expression in liver is reduced with ageing 1299828