Cd274 (CD274 molecule) - Rat Genome Database

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Gene: Cd274 (CD274 molecule) Rattus norvegicus
Analyze
Symbol: Cd274
Name: CD274 molecule
RGD ID: 1566211
Description: Involved in positive regulation of T cell proliferation and positive regulation of cell migration. Localizes to cell surface. Biomarker of periodontitis and pre-eclampsia. Orthologous to human CD274 (CD274 molecule); INTERACTS WITH 1-naphthyl isothiocyanate; 17beta-estradiol; 17beta-estradiol 3-benzoate.
Type: protein-coding
RefSeq Status: PROVISIONAL
Also known as: CD274 antigen; LOC499342; Pdcd1lg1; programmed cell death 1 ligand 1; RGD1566211; similar to PD-1-ligand precursor
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
mRatBN7.21227,116,627 - 227,137,379 (+)NCBI
Rnor_6.0 Ensembl1247,519,939 - 247,537,943 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.01247,519,890 - 247,539,659 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01254,768,528 - 254,788,292 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41233,053,607 - 233,065,384 (+)NCBIRGSC3.4rn4RGSC3.4
Celera1224,273,306 - 224,285,083 (+)NCBICelera
Cytogenetic Map1q52NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View
acute myocarditis  (ISO)
adult T-cell leukemia  (ISO)
allergic disease  (ISO)
alveolar echinococcosis  (ISO)
anti-basement membrane glomerulonephritis  (ISO)
asthma  (ISO)
autoimmune hepatitis  (ISO)
cervix uteri carcinoma in situ  (ISO)
Chlamydia pneumonia  (ISO)
Chronic Hepatitis B  (ISO)
Chronic Hepatitis C  (ISO)
colon cancer  (ISO)
Corneal Graft Rejection  (IMP)
Coxsackievirus Infections  (ISO)
cryptococcal meningitis  (ISO)
cutaneous leishmaniasis  (ISO)
Disease Progression  (ISO)
Fungemia  (ISO)
Hepatic Echinococcosis  (ISO)
hepatitis C  (ISO)
hepatocellular carcinoma  (ISO)
herpes simplex  (ISO)
herpes simplex virus keratitis  (ISO)
histoplasmosis  (ISO)
human immunodeficiency virus infectious disease  (ISO)
influenza  (ISO)
Lung Neoplasms  (ISO)
lymphocytic choriomeningitis  (ISO)
lymphoma  (ISO)
Mammary Neoplasms, Experimental  (IDA)
nasal type extranodal NK/T-cell lymphoma  (ISO)
Neoplasm Metastasis  (ISO)
Neoplasms, Radiation-Induced  (ISO)
ovarian cancer  (ISO)
papillomavirus infectious disease  (ISO)
periodontitis  (IEP)
pre-eclampsia  (IEP)
primary progressive multiple sclerosis  (ISO)
pulmonary tuberculosis  (ISO)
rabies  (ISO)
Recurrence  (ISO)
Recurrent Respiratory Papillomatosis  (ISO)
respiratory syncytial virus infectious disease  (ISO)
Retroviridae Infections  (ISO)
Sepsis  (ISO)
Spinal Cord Injuries  (IEP)
stomach cancer  (ISO)
substance-related disorder  (ISO)
Thymus Neoplasms  (ISO)
toxic shock syndrome  (ISO)
Transplant Rejection  (ISO)
tuberculosis  (ISO)
Viral Bronchiolitis  (ISO)
viral encephalitis  (ISO)

Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(-)-demecolcine  (ISO)
1,2-dimethylhydrazine  (ISO)
1,4-phenylenediamine  (ISO)
1-chloro-2,4-dinitrobenzene  (ISO)
1-naphthyl isothiocyanate  (EXP)
17beta-estradiol  (EXP)
17beta-estradiol 3-benzoate  (EXP)
2,3,7,8-tetrachlorodibenzodioxine  (ISO)
2-hydroxypropanoic acid  (ISO)
3-phenylprop-2-enal  (ISO)
4,4'-diaminodiphenylmethane  (ISO)
5-fluorouracil  (ISO)
acetamide  (EXP)
acetylsalicylic acid  (ISO)
aflatoxin B1  (ISO)
aripiprazole  (ISO)
benzalkonium chloride  (ISO)
benzo[a]pyrene  (ISO)
bisphenol A  (EXP,ISO)
bromobenzene  (EXP)
buta-1,3-diene  (ISO)
butanal  (ISO)
cadmium atom  (ISO)
calcitriol  (ISO)
cannabidiol  (ISO)
carbon nanotube  (ISO)
carboplatin  (ISO)
chloroquine  (ISO)
chlorpromazine  (ISO)
cisplatin  (ISO)
decabromodiphenyl ether  (EXP)
dexamethasone  (ISO)
dextran sulfate  (ISO)
dioxygen  (ISO)
dorsomorphin  (ISO)
doxorubicin  (ISO)
endosulfan  (EXP)
estriol  (ISO)
ethyl methanesulfonate  (ISO)
etoposide  (ISO)
eugenol  (ISO)
ferric oxide  (ISO)
folic acid  (ISO)
formaldehyde  (ISO)
furan  (EXP)
imiquimod  (ISO)
isoeugenol  (ISO)
kojic acid  (ISO)
leflunomide  (ISO)
lipopolysaccharide  (ISO)
LY294002  (ISO)
methotrexate  (ISO)
methyl methanesulfonate  (ISO)
nickel atom  (ISO)
nickel sulfate  (ISO)
oxaliplatin  (ISO)
ozone  (ISO)
paclitaxel  (ISO)
paracetamol  (ISO)
pentachlorophenol  (ISO)
pentanal  (ISO)
phenformin  (EXP)
phenobarbital  (ISO)
platycodin D  (ISO)
protein kinase inhibitor  (ISO)
rac-lactic acid  (ISO)
resveratrol  (ISO)
rotenone  (EXP)
SB 431542  (ISO)
silicon dioxide  (ISO)
sodium arsenite  (ISO)
succimer  (ISO)
sunitinib  (ISO)
testosterone  (EXP,ISO)
tetrachloromethane  (ISO)
thioacetamide  (EXP)
thyroxine  (ISO)
titanium dioxide  (ISO)
trans-isoeugenol  (ISO)
trichostatin A  (ISO)
urethane  (ISO)
valproic acid  (ISO)
vinclozolin  (EXP)
vincristine  (ISO)
zearalenone  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

References

References - curated
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22. Lafon M, etal., J Immunol. 2008 Jun 1;180(11):7506-15. doi: 10.4049/jimmunol.180.11.7506.
23. Lee I, etal., J Immunol. 2003 Dec 15;171(12):6929-35.
24. León-Flores A, etal., Immunol Lett. 2018 Nov;203:70-79. doi: 10.1016/j.imlet.2018.09.007. Epub 2018 Sep 17.
25. Liang SC, etal., Eur J Immunol. 2006 Jan;36(1):58-64. doi: 10.1002/eji.200535458.
26. Liu X, etal., Pathol Res Pract. 2020 Apr;216(4):152881. doi: 10.1016/j.prp.2020.152881. Epub 2020 Feb 13.
27. Lázár-Molnár E, etal., Proc Natl Acad Sci U S A. 2008 Feb 19;105(7):2658-63. doi: 10.1073/pnas.0711918105. Epub 2008 Feb 11.
28. McNab FW, etal., Eur J Immunol. 2011 Jul;41(7):1941-7. doi: 10.1002/eji.201141421. Epub 2011 May 27.
29. Miyoshi H, etal., Blood. 2016 Sep 8;128(10):1374-81. doi: 10.1182/blood-2016-02-698936. Epub 2016 Jul 14.
30. Nosov M, etal., Am J Transplant. 2012 May;12(5):1313-22. doi: 10.1111/j.1600-6143.2011.03948.x. Epub 2012 Feb 2.
31. Pan T, etal., Mediators Inflamm. 2015;2015:539841. doi: 10.1155/2015/539841. Epub 2015 Apr 30.
32. Phares TW, etal., J Immunol. 2010 Nov 1;185(9):5607-18. Epub 2010 Sep 27.
33. Reynolds J, etal., Nephrol Dial Transplant. 2012 Apr;27(4):1343-50. doi: 10.1093/ndt/gfr529. Epub 2011 Sep 29.
34. RGD automated import pipeline for gene-chemical interactions
35. RGD comprehensive gene curation
36. Shao R, etal., Crit Care. 2016 May 9;20(1):124. doi: 10.1186/s13054-016-1301-x.
37. Shen T, etal., J Med Virol. 2010 Jul;82(7):1152-9. doi: 10.1002/jmv.21809.
38. Shwetank, etal., Front Immunol. 2019 Apr 17;10:783. doi: 10.3389/fimmu.2019.00783. eCollection 2019.
39. Singh A, etal., J Infect Dis. 2013 Aug 15;208(4):603-15. doi: 10.1093/infdis/jit206. Epub 2013 May 9.
40. Starkey MR, etal., Am J Respir Cell Mol Biol. 2016 Apr;54(4):493-503. doi: 10.1165/rcmb.2015-0204OC.
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42. Valero-Pacheco N, etal., Clin Dev Immunol. 2013;2013:989673. doi: 10.1155/2013/989673. Epub 2013 Sep 26.
43. Wang J, etal., Parasite Immunol. 2018 Dec;40(12):e12596. doi: 10.1111/pim.12596. Epub 2018 Nov 4.
44. Wang T, etal., Antiviral Res. 2019 Jun;166:1-10. doi: 10.1016/j.antiviral.2019.03.007. Epub 2019 Mar 20.
45. Weng ZH, etal., Zhonghua Gan Zang Bing Za Zhi. 2010 Apr;18(4):263-6. doi: 10.3760/cma.j.issn.1007-3418.2010.04.007.
46. Wilson JK, etal., Crit Care. 2018 Apr 17;22(1):95. doi: 10.1186/s13054-018-2020-2.
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50. Yang W, etal., Immunology. 2013 Aug;139(4):513-22. doi: 10.1111/imm.12101.
51. Yang X, etal., Shanghai Kou Qiang Yi Xue. 2019 Dec;28(6):591-596.
52. Yao S, etal., Mucosal Immunol. 2015 Jul;8(4):746-59. doi: 10.1038/mi.2014.106. Epub 2014 Dec 3.
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Additional References at PubMed
PMID:10581077   PMID:12538684   PMID:15568026   PMID:17016562   PMID:17076679   PMID:17489864   PMID:21855860   PMID:23716698   PMID:24691993   PMID:25310899   PMID:25902191   PMID:28196545  
PMID:28458101   PMID:28813410   PMID:28813417   PMID:30092337   PMID:31733200  


Genomics

Comparative Map Data
Cd274
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21227,116,627 - 227,137,379 (+)NCBI
Rnor_6.0 Ensembl1247,519,939 - 247,537,943 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.01247,519,890 - 247,539,659 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01254,768,528 - 254,788,292 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41233,053,607 - 233,065,384 (+)NCBIRGSC3.4rn4RGSC3.4
Celera1224,273,306 - 224,285,083 (+)NCBICelera
Cytogenetic Map1q52NCBI
CD274
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl95,450,503 - 5,470,566 (+)EnsemblGRCh38hg38GRCh38
GRCh3895,450,542 - 5,470,554 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh3795,450,542 - 5,470,554 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 3695,440,559 - 5,458,477 (+)NCBINCBI36hg18NCBI36
Celera95,376,139 - 5,396,204 (+)NCBI
Cytogenetic Map9p24.1NCBI
HuRef95,406,210 - 5,426,274 (+)NCBIHuRef
CHM1_195,450,664 - 5,470,759 (+)NCBICHM1_1
Cd274
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391929,339,428 - 29,365,495 (+)NCBIGRCm39mm39
GRCm39 Ensembl1929,344,855 - 29,365,495 (+)Ensembl
GRCm381929,362,107 - 29,388,095 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1929,367,455 - 29,388,095 (+)EnsemblGRCm38mm10GRCm38
MGSCv371929,441,928 - 29,462,585 (+)NCBIGRCm37mm9NCBIm37
MGSCv361929,433,452 - 29,454,092 (+)NCBImm8
Celera1930,144,050 - 30,164,685 (+)NCBICelera
Cytogenetic Map19C1NCBI
Cd274
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554349,487,315 - 9,505,904 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554349,487,309 - 9,508,366 (+)NCBIChiLan1.0ChiLan1.0
CD274
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.195,454,391 - 5,474,452 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl95,454,391 - 5,474,402 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v095,269,270 - 5,289,629 (+)NCBIMhudiblu_PPA_v0panPan3
CD274
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1193,461,735 - 93,605,772 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl193,585,518 - 93,603,522 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha193,993,732 - 94,011,736 (+)NCBI
ROS_Cfam_1.0194,015,405 - 94,159,596 (+)NCBI
UMICH_Zoey_3.1193,771,527 - 93,789,533 (+)NCBI
UNSW_CanFamBas_1.0193,496,313 - 93,514,317 (+)NCBI
UU_Cfam_GSD_1.0194,260,510 - 94,278,519 (+)NCBI
Cd274
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024404947141,675,278 - 141,693,582 (+)NCBI
SpeTri2.0NW_004936539132,870 - 145,288 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CD274
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1216,660,047 - 216,792,724 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11216,646,378 - 216,792,731 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21242,395,402 - 242,416,220 (-)NCBISscrofa10.2Sscrofa10.2susScr3
CD274
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11274,038,844 - 74,060,662 (-)NCBI
ChlSab1.1 Ensembl1274,041,767 - 74,056,806 (-)Ensembl
Cd274
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046247369,991,851 - 10,017,047 (+)NCBI


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
2292216Bw80Body weight QTL 803.230.0019body mass (VT:0001259)body weight (CMO:0000012)1233490105264802994Rat
70211Niddm24Non-insulin dependent diabetes mellitus QTL 243.79blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)1236795785281795785Rat
631215Stl8Serum triglyceride level QTL 89.270.0001blood triglyceride amount (VT:0002644)serum triglyceride level (CMO:0000360)1245529606282763074Rat
2302040Pia35Pristane induced arthritis QTL 353.80.001blood immunoglobulin amount (VT:0002460)serum immunoglobulin G1 level (CMO:0002115)1236265430281265430Rat
2302375Bw83Body weight QTL 834.870.0002body mass (VT:0001259)body weight (CMO:0000012)1215711860260711860Rat
2302378Insul11Insulin level QTL 113.25blood insulin amount (VT:0001560)serum insulin level (CMO:0000358)1156446196274977688Rat
61455Niddm7Non-insulin dependent diabetes mellitus QTL 75.5blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)1236763415258766873Rat
724531Uae5Urinary albumin excretion QTL 54urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)1161321152273792054Rat
724533Rf51Renal function QTL 515.30.0002kidney plasma flow trait (VT:0005524)renal plasma flow (CMO:0001914)1238830534278228767Rat
724538Kidm1Kidney mass QTL 13.2kidney mass (VT:0002707)calculated kidney weight (CMO:0000160)1233663100273792054Rat
724552Glom2Glomerulus QTL 23.30.0001kidney glomerulus morphology trait (VT:0005325)count of superficial glomeruli directly contacting the kidney surface (CMO:0001001)1243272341282763074Rat
734767Niddm57Non-insulin dependent diabetes mellitus QTL 57body mass (VT:0001259)body weight (CMO:0000012)1244401175282365384Rat
734768Niddm59Non-insulin dependent diabetes mellitus QTL 59body mass (VT:0001259)body weight (CMO:0000012)1235850810280850810Rat
734769Niddm58Non-insulin dependent diabetes mellitus QTL 58body mass (VT:0001259)body weight (CMO:0000012)1244992467282365384Rat
1298084Thym4Thymus enlargement QTL 410.68thymus mass (VT:0004954)thymus weight to body weight ratio (CMO:0000612)1215828102260828102Rat
631658Cm7Cardiac mass QTL 75.320.0001aorta mass (VT:0002845)aorta weight (CMO:0000076)1216324817261324817Rat
1354580Scort1Serum corticosterone level QTL 13.4blood corticosterone amount (VT:0005345)blood corticosterone level (CMO:0001172)1167394665278228889Rat
731175Uae20Urinary albumin excretion QTL 203.50.0018urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)1241482188281795785Rat
738032Hcas5Hepatocarcinoma susceptibility QTL 53.12liver integrity trait (VT:0010547)liver tumorous lesion number (CMO:0001068)1191825895279986079Rat
1300168Bp170Blood pressure QTL 1702.76arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1227107736249206417Rat
1641926Teswt2Testicular weight QTL 22.82testis mass (VT:1000644)both testes wet weight (CMO:0000175)1215711860258765521Rat
1598821Rf55Renal function QTL 556.3renal blood flow trait (VT:2000006)ratio of change in renal blood flow to change in renal perfusion pressure (CMO:0001239)1238824734279986079Rat
2300175Bmd40Bone mineral density QTL 4015.40.0001femur mineral mass (VT:0010011)bone mineral density (CMO:0001226)1221901238266901238Rat
2293655Bss36Bone structure and strength QTL 3610.660.0001femur strength trait (VT:0010010)femur ultimate force (CMO:0001675)1221901238266901238Rat
2293674Bss39Bone structure and strength QTL 397.10.0001femur strength trait (VT:0010010)femur total energy absorbed before break (CMO:0001677)1221901238266901238Rat
2293694Bss38Bone structure and strength QTL 387.050.0001femur strength trait (VT:0010010)femur stiffness (CMO:0001674)1221901238266901238Rat
2293700Bmd27Bone mineral density QTL 276.60.0001femur mineral mass (VT:0010011)trabecular volumetric bone mineral density (CMO:0001729)1244401175264636028Rat
2293701Bmd34Bone mineral density QTL 348.30.0001femur strength trait (VT:0010010)femoral neck ultimate force (CMO:0001703)1244401175264636028Rat
631838Niddm36Non-insulin dependent diabetes mellitus QTL 360.01insulin secretion trait (VT:0003564)calculated pancreatic islet insulin release measurement (CMO:0001217)1205195290250195290Rat
631843Bw116Body weight QTL 1164.10.016abdominal adipose amount (VT:1000220)abdominal fat pad weight (CMO:0000088)1244401175282365384Rat
634313Niddm43Non-insulin dependent diabetes mellitus QTL 43blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)1217054291281795785Rat
634321Hc1Hypercalciuria QTL 12.91urine calcium amount (VT:0002985)urine calcium excretion rate (CMO:0000763)1193968438261264776Rat
1357335Bw39Body weight QTL 393.3body mass (VT:0001259)body weight (CMO:0000012)1215828102260828102Rat
1357399Bw45Body weight QTL 453.05body mass (VT:0001259)body mass index (BMI) (CMO:0000105)1225689973270689973Rat
1357404Bw42Body weight QTL 424.490.0001body mass (VT:0001259)body weight (CMO:0000012)1225689973270689973Rat
1600363Hc6Hypercalciuria QTL 62.7urine calcium amount (VT:0002985)urine calcium excretion rate (CMO:0000763)1195598053265002735Rat
1600374Mcs17Mammary carcinoma susceptibility QTL 173mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)1215684498260684498Rat
1600388Niddm67Non-insulin dependent diabetes mellitus QTL 675.840.000004blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)1213476630278978026Rat
1600392Bw123Body weight QTL 1230.001body mass (VT:0001259)body weight (CMO:0000012)1244087148282763074Rat
1600395Niddm69Non-insulin dependent diabetes mellitus QTL 694.140.0002blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)1213476630278978026Rat
1600396Niddm68Non-insulin dependent diabetes mellitus QTL 684.970.0003blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)1213476630278978026Rat
1600397Edcs4Endometrial carcinoma susceptibility QTL 42.2uterus morphology trait (VT:0001120)percentage of study population developing endometrioid carcinoma during a period of time (CMO:0001759)1226706329271706329Rat
1578759Uae30Urinary albumin excretion QTL 303.30.003urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)1161321256273791893Rat
1578763Kidm29Kidney mass QTL 293.30.0001kidney mass (VT:0002707)both kidneys wet weight (CMO:0000085)1196395041282763074Rat
1578778Pur4Proteinuria QTL 43.30.003total urine protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)1161321256273791893Rat
1354610Bw34Body weight QTL 344.1body mass (VT:0001259)body weight (CMO:0000012)1161784169278228889Rat
1354624Cm35Cardiac mass QTL355.7heart left ventricle mass (VT:0007031)calculated heart weight (CMO:0000073)1192639698278228889Rat
1354646Kidm18Kidney mass QTL 185.7kidney mass (VT:0002707)calculated kidney weight (CMO:0000160)1161784169278228889Rat
1354652Kidm20Kidney mass QTL 204.3kidney mass (VT:0002707)calculated kidney weight (CMO:0000160)1192639698278228889Rat
1354661Bw33Body weight QTL 335.2body mass (VT:0001259)body weight (CMO:0000012)1161784169278228889Rat
1549910Bw54Body weight QTL 540.05body mass (VT:0001259)body weight (CMO:0000012)1236795785281795785Rat
1549837Hcar15Hepatocarcinoma resistance QTL 150.05liver integrity trait (VT:0010547)liver tumorous lesion number (CMO:0001068)1163796316282763074Rat
1358191Ept10Estrogen-induced pituitary tumorigenesis QTL 103.8pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)1210360774264802828Rat
2292220Bp306Blood pressure QTL 3063.470.00087arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1174905700264802994Rat
2312564Glom18Glomerulus QTL 182.40.003kidney glomerulus morphology trait (VT:0005325)index of glomerular damage (CMO:0001135)1201358068252480016Rat
1358890Bp259Blood pressure QTL 2593.06arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1230420627282645769Rat
1358898Bp255Blood pressure QTL 2553.6arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1208517798266948272Rat
1358916Kidm22Kidney mass QTL 223.32kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)1230420627262031693Rat
1358292Cm37Cardiac mass QTL 376.20.00000081heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)1216324817261324817Rat
61327Eae7Experimental allergic encephalomyelitis QTL 75.6body mass (VT:0001259)change in body weight (CMO:0002045)1236265430281265430Rat
61376Bp42Blood pressure QTL 4223.4arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1215828102260828102Rat
61400Niddm1Non-insulin dependent diabetes mellitus QTL 111blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)1238830408266793958Rat
61403Niddm4Non-insulin dependent diabetes mellitus QTL 4blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)1225689973247836969Rat
6480786Bw97Body weight QTL 975.03body mass (VT:0001259)body weight (CMO:0000012)1245529606248013094Rat
8693618Alc25Alcohol consumption QTL 2530.28drinking behavior trait (VT:0001422)calculated ethanol drink intake rate (CMO:0001615)1227509470249252048Rat
8693661Alc34Alcohol consumption QTL 342.20.611drinking behavior trait (VT:0001422)calculated ethanol drink intake rate (CMO:0001615)1227509470249252048Rat
8655655Arrd2Age-related retinal degeneration QTL 27.79retinal layer morphology trait (VT:0003727)percentage of study population developing retinopathy during a period of time (CMO:0002453)1202571665264802994Rat
7794788Mcs32Mammary carcinoma susceptibility QTL 322.61mammary gland integrity trait (VT:0010552)mammary tumor incidence/prevalence measurement (CMO:0000946)1122614824262664716Rat
8693637Alc29Alcohol consumption QTL 292.70.258drinking behavior trait (VT:0001422)calculated ethanol drink intake rate (CMO:0001615)1227509470255131140Rat
7421630Bp362Blood pressure QTL 3620.001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1125875758262433692Rat
8552891Epfw5Epididymal fat weight QTL 54.4epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)1210652654255652654Rat
7394701Uae46Urinary albumin excretion QTL 463.60.0056urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)1221901238266901238Rat
7387289Uae45Urinary albumin excretion QTL 452.860.0021urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)1244148899282763074Rat
8655855Arrd3Age-related retinal degeneration QTL 33.07lens clarity trait (VT:0001304)cataract incidence/prevalence measurement (CMO:0001585)1202571665264802994Rat
10053715Scort24Serum corticosterone level QTL 242.130.0088blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)1242302911282763074Rat
10059587Bw173Body weight QTL 1733.230.025body mass (VT:0001259)body weight (CMO:0000012)1222492538267492538Rat
10059590Kidm44Kidney mass QTL 443.420.025kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)1210990171255990171Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:53
Count of miRNA genes:47
Interacting mature miRNAs:51
Transcripts:ENSRNOT00000034421
Prediction methods:Miranda, Rnahybrid, Targetscan
Result types:miRGate_prediction

The detailed report is available here: Full Report CSV TAB Printer

miRNA Target Status data imported from miRGate (http://mirgate.bioinfo.cnio.es/).
For more information about miRGate, see PMID:25858286 or access the full paper here.


Expression


RNA-SEQ Expression
High: > 1000 TPM value   Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM   Below Cutoff: < 0.5 TPM

alimentary part of gastrointestinal system circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system appendage
High
Medium 8 19 9
Low 3 31 35 27 27 8 11 50 35 38 2 8
Below cutoff 10 14 14 14 24 3

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000034421   ⟹   ENSRNOP00000029992
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1247,519,939 - 247,537,943 (+)Ensembl
RefSeq Acc Id: NM_001191954   ⟹   NP_001178883
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21227,121,891 - 227,133,668 (+)NCBI
Rnor_6.01247,525,151 - 247,536,928 (+)NCBI
Rnor_5.01254,768,528 - 254,788,292 (+)NCBI
Celera1224,273,306 - 224,285,083 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006231248   ⟹   XP_006231310
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21227,116,627 - 227,137,379 (+)NCBI
Rnor_6.01247,519,890 - 247,539,659 (+)NCBI
Rnor_5.01254,768,528 - 254,788,292 (+)NCBI
Sequence:
RefSeq Acc Id: XM_039088029   ⟹   XP_038943957
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21227,116,740 - 227,137,379 (+)NCBI
RefSeq Acc Id: XM_039088034   ⟹   XP_038943962
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21227,116,689 - 227,137,379 (+)NCBI
Protein Sequences
Protein RefSeqs NP_001178883 (Get FASTA)   NCBI Sequence Viewer  
  XP_006231310 (Get FASTA)   NCBI Sequence Viewer  
  XP_038943957 (Get FASTA)   NCBI Sequence Viewer  
  XP_038943962 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein EDM13095 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: NP_001178883   ⟸   NM_001191954
- Peptide Label: precursor
- UniProtKB: D4AE25 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006231310   ⟸   XM_006231248
- Peptide Label: isoform X1
- UniProtKB: D4AE25 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000029992   ⟸   ENSRNOT00000034421
RefSeq Acc Id: XP_038943962   ⟸   XM_039088034
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038943957   ⟸   XM_039088029
- Peptide Label: isoform X1
Protein Domains
Ig-like

Transcriptome

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

Promoters
RGD ID:13690846
Promoter ID:EPDNEW_R1371
Type:single initiation site
Name:Cd274_1
Description:CD274 molecule
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_6.01247,519,934 - 247,519,994EPDNEW

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_5.0

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
1 254775074 254775075 C T snv WKY/Gcrc (KNAW), WKY/N (KNAW), WKY/NHsd (KNAW), WKY/NCrl (KNAW)
1 254775146 254775147 C A snv WKY/NCrl (KNAW), WKY/Gcrc (KNAW), WKY/NHsd (KNAW), WKY/N (KNAW)
1 254781717 254781718 A G snv LE/Stm (Illumina) (KNAW), LE/Stm (SOLiD) (KNAW), FHL/EurMcwi (KNAW), FHH/EurMcwi (KNAW), WKY/NHsd (KNAW), WKY/NCrl (KNAW), WKY/N (KNAW), WKY/Gcrc (KNAW), LE/Stm (KyushuU), FHH/EurMcwi (MCW), FHL/EurMcwi (MCW)


Assembly: Rnor_6.0

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
1 247526441 247526442 C T snv WKY/NHsd (RGD), WKY/N (MCW), WKY/Gcrc (RGD), WKY/NCrl (RGD)
1 247526513 247526514 C A snv WKY/NHsd (RGD), WKY/Gcrc (RGD), WKY/NCrl (RGD), WKY/N (MCW)
1 247533084 247533085 A G snv WKY/Gcrc (RGD), WKY/NCrl (RGD), LE/Stm (RGD), FHH/EurMcwi (RGD), FHL/EurMcwi (RGD), WKY/N (MCW), WKY/NHsd (RGD), FHH/EurMcwi (MCW), FHL/EurMcwi (MCW)


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1566211 AgrOrtholog
Ensembl Genes ENSRNOG00000016112 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000029992 ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000034421 UniProtKB/TrEMBL
Gene3D-CATH 2.60.40.10 UniProtKB/TrEMBL
InterPro CD80_C2-set UniProtKB/TrEMBL
  Ig-like UniProtKB/TrEMBL
  Ig-like_dom_sf UniProtKB/TrEMBL
  Ig-like_fold UniProtKB/TrEMBL
  Ig_sub UniProtKB/TrEMBL
  Ig_V-set UniProtKB/TrEMBL
KEGG Report rno:499342 UniProtKB/TrEMBL
NCBI Gene 499342 ENTREZGENE
Pfam C2-set_2 UniProtKB/TrEMBL
  V-set UniProtKB/TrEMBL
PhenoGen Cd274 PhenoGen
PROSITE IG_LIKE UniProtKB/TrEMBL
SMART SM00409 UniProtKB/TrEMBL
Superfamily-SCOP SSF48726 UniProtKB/TrEMBL
UniProt D4AE25 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-06-27 Cd274  CD274 molecule  Cd274  CD274 antigen  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-03-07 Cd274  CD274 antigen  RGD1566211_predicted  similar to PD-1-ligand precursor (predicted)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2006-03-07 RGD1566211_predicted  similar to PD-1-ligand precursor (predicted)  LOC499342  similar to PD-1-ligand precursor  Symbol and Name status set to approved 1299863 APPROVED
2006-02-09 LOC499342  similar to PD-1-ligand precursor      Symbol and Name status set to provisional 70820 PROVISIONAL