Muc1 (mucin 1, cell surface associated) - Rat Genome Database
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Gene: Muc1 (mucin 1, cell surface associated) Rattus norvegicus
Analyze
Symbol: Muc1
Name: mucin 1, cell surface associated
RGD ID: 3122
Description: Predicted to have RNA polymerase II cis-regulatory region sequence-specific DNA binding activity; p53 binding activity; and transcription coregulator activity. Involved in several processes, including cellular response to retinoic acid; female pregnancy; and response to hypoxia. Localizes to apical plasma membrane and cytoplasm. Biomarker of cholangiocarcinoma; chronic obstructive pulmonary disease; cystic fibrosis; and otitis media. Human ortholog(s) of this gene implicated in biliary tract benign neoplasm; breast cancer; dry eye syndrome; mucinous adenocarcinoma; and pancreatic cancer (multiple). Orthologous to human MUC1 (mucin 1, cell surface associated); PARTICIPATES IN p53 signaling pathway; INTERACTS WITH 17alpha-ethynylestradiol; 17beta-estradiol; 2-acetamidofluorene.
Type: protein-coding
RefSeq Status: MODEL
Also known as: MGC188069; mucin 1; mucin 1, transmembrane; mucin-1; Mucin1
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Allele / Splice: Muc1em1Mcwi  
Genetic Models: FHH-Muc1em1Mcwi
Latest Assembly: Rnor_6.0 - RGSC Genome Assembly v6.0
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rnor_6.02188,543,137 - 188,547,874 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl2188,543,137 - 188,547,874 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.02207,957,206 - 207,962,396 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.42181,399,482 - 181,403,640 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.12181,352,002 - 181,353,687 (+)NCBI
Celera2168,578,421 - 168,583,038 (+)NCBICelera
Cytogenetic Map2q34NCBI
RH 3.4 Map21155.0RGD
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View
adult respiratory distress syndrome  (ISO)
allergic conjunctivitis  (ISO)
asthma  (ISO)
bacterial conjunctivitis  (ISO)
biliary tract benign neoplasm  (ISO)
bird fancier's lung  (ISO)
blepharitis  (ISO)
breast adenocarcinoma  (ISO)
breast cancer  (ISO)
bronchiolitis obliterans  (ISO)
Bronchopulmonary Dysplasia  (ISO)
cholangiocarcinoma  (IEP,ISO)
chronic obstructive pulmonary disease  (IEP)
common bile duct neoplasm  (ISO)
cystic fibrosis  (IEP)
Diabetes Complications  (IEP)
dry eye syndrome  (ISO)
Fetal Growth Retardation  (IEP)
Gallbladder Neoplasms  (ISO)
heart disease  (ISO)
Hematologic Neoplasms  (ISO)
idiopathic pulmonary fibrosis  (ISO)
interstitial lung disease  (ISO)
Kidney Reperfusion Injury  (IDA)
Liver Reperfusion Injury  (IEP)
lung adenocarcinoma  (ISO)
lung disease  (ISO)
Lymphatic Metastasis  (ISO)
Mammary Neoplasms, Experimental  (ISO)
measles  (ISO)
Medullary Cystic Kidney Disease 1  (ISO)
Mesothelioma  (ISO)
mucinous adenocarcinoma  (ISO)
multiple myeloma  (ISO)
Neoplasm Metastasis  (ISO)
Neoplastic Cell Transformation  (ISO)
obstructive sleep apnea  (ISO)
otitis media  (IEP)
pancreatic cancer  (ISO)
pancreatic ductal carcinoma  (ISO)
Peritoneal Neoplasms  (ISO)
pneumocystosis  (ISO)
pneumonia  (ISO)
pre-malignant neoplasm  (ISO)
prostate cancer  (ISO)
pulmonary sarcoidosis  (ISO)
renal cell carcinoma  (ISO)
Reperfusion Injury  (IEP)
Stomach Neoplasms  (ISO)
systemic scleroderma  (ISO)
Tubulointerstitial Nephritis and Uveitis  (ISO)
urinary bladder cancer  (ISO)
Viral Bronchiolitis  (ISO)

Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
17alpha-ethynylestradiol  (EXP)
17beta-estradiol  (EXP,ISO)
2,3,7,8-tetrachlorodibenzodioxine  (ISO)
2-acetamidofluorene  (EXP)
3,3',5,5'-tetrabromobisphenol A  (EXP)
3,4-dichloroaniline  (ISO)
3-isobutyl-1-methyl-7H-xanthine  (ISO)
4,4'-sulfonyldiphenol  (ISO)
4-tert-Octylphenol  (ISO)
5-aza-2'-deoxycytidine  (ISO)
6-propyl-2-thiouracil  (EXP)
7,12-dimethyltetraphene  (EXP)
8-Br-cAMP  (ISO)
acetamide  (EXP)
aflatoxin B1  (EXP)
alendronic acid  (EXP)
all-trans-retinoic acid  (ISO)
ammonium chloride  (EXP)
antirheumatic drug  (ISO)
arsane  (ISO)
arsenic atom  (ISO)
benzo[a]pyrene  (ISO)
benzo[a]pyrene diol epoxide I  (ISO)
bexarotene  (EXP)
bisphenol A  (EXP,ISO)
bisphenol F  (ISO)
boric acids  (ISO)
bortezomib  (ISO)
butanal  (ISO)
cadmium atom  (ISO)
calcitriol  (ISO)
ceric oxide  (ISO)
chitin  (ISO)
chloroquine  (ISO)
choline  (ISO)
cisplatin  (ISO)
cyclosporin A  (EXP,ISO)
dexamethasone  (ISO)
dibenzo[a,l]pyrene  (ISO)
diethylstilbestrol  (EXP,ISO)
dioxygen  (ISO)
diuron  (ISO)
dorsomorphin  (ISO)
endosulfan  (EXP)
enilconazole  (ISO)
flavonoids  (EXP)
folic acid  (ISO)
fulvestrant  (ISO)
genistein  (ISO)
gentamycin  (EXP)
hydralazine  (ISO)
indole-3-methanol  (EXP,ISO)
isoniazide  (ISO)
isotretinoin  (ISO)
L-methionine  (ISO)
medroxyprogesterone acetate  (ISO)
mifepristone  (ISO)
N-benzyloxycarbonyl-L-leucyl-L-leucyl-L-leucinal  (ISO)
N-nitrosodiethylamine  (EXP)
naphthalene  (EXP)
nickel sulfate  (ISO)
ochratoxin A  (ISO)
p-tert-Amylphenol  (ISO)
paracetamol  (ISO)
phenethyl caffeate  (EXP)
phenylmercury acetate  (ISO)
phorbol 13-acetate 12-myristate  (ISO)
pioglitazone  (ISO)
pirinixic acid  (ISO)
potassium bromate  (ISO)
potassium chromate  (ISO)
progesterone  (ISO)
prostaglandin E2  (ISO)
quercetin  (EXP)
raloxifene  (EXP,ISO)
resveratrol  (ISO)
rotenone  (ISO)
SB 431542  (ISO)
silicon dioxide  (EXP,ISO)
sulforaphane  (ISO)
sulindac sulfide  (ISO)
sunitinib  (ISO)
tamoxifen  (ISO)
tert-butyl hydroperoxide  (ISO)
titanium dioxide  (EXP,ISO)
triphenyl phosphate  (ISO)
valproic acid  (ISO)
vancomycin  (ISO)
vandetanib  (ISO)
vinclozolin  (EXP)
zinc atom  (ISO)
zinc(0)  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
References

References - curated
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18. Guzman K, etal., Am J Physiol 1996 May;270(5 Pt 1):L846-53.
19. Hamada H, etal., Intern Med. 1998 Mar;37(3):307-10.
20. Hant FN, etal., J Rheumatol. 2009 Apr;36(4):773-80. Epub 2009 Mar 13.
21. Ho SB, etal., Cancer Res. 1993 Feb 1;53(3):641-51.
22. Imai T, etal., Pediatr Pulmonol. 2002 Feb;33(2):135-41.
23. Imbert Y, etal., Exp Eye Res. 2009 Mar;88(3):334-8. doi: 10.1016/j.exer.2008.05.019. Epub 2008 Jun 20.
24. Isaacs J and Murphy CR, Acta Histochem. 2003;105(3):239-43.
25. Ishikawa N, etal., Respiration. 2011 Apr 7.
26. Jan YY, etal., Ann Surg. 2004 Jul;240(1):89-94.
27. Janssen R, etal., Chest. 2003 Dec;124(6):2119-25.
28. Janssen R, etal., Sarcoidosis Vasc Diffuse Lung Dis. 2005 Mar;22(1):51-7.
29. Kardon R, etal., Invest Ophthalmol Vis Sci. 1999 Jun;40(7):1328-35.
30. Kase S, etal., Am J Kidney Dis. 2006 Dec;48(6):935-41.
31. Kashiwagi H, etal., Oncol Rep. 2001 May-Jun;8(3):485-9.
32. Kaufman HL, etal., J Transl Med. 2007 Nov 26;5:60.
33. Kawamoto T, etal., Clin Exp Metastasis. 2004;21(4):353-62.
34. Kawaoka T, etal., Oncol Rep. 2008 Jul;20(1):155-63.
35. Kawasaki Y, etal., J Med Virol. 2009 Dec;81(12):2104-8.
36. Kim DH, etal., Neonatology. 2008;93(4):223-9. Epub 2007 Nov 16.
37. Kinoshita F, etal., Respir Med. 2004 Nov;98(11):1131-7.
38. Kirby A, etal., Nat Genet. 2013 Mar;45(3):299-303. doi: 10.1038/ng.2543. Epub 2013 Feb 10.
39. Kitamura H, etal., Jpn J Cancer Res. 1996 Jun;87(6):631-40.
40. Kohlgraf KG, etal., Cancer Res. 2003 Aug 15;63(16):5011-20.
41. Kondo H, etal., Anticancer Res. 2008 Jan-Feb;28(1B):379-87.
42. Kwitek AE, etal., Genome Res. 2004 Apr;14(4):750-7
43. Lacunza E, etal., Eur J Histochem. 2010 Nov 26;54(4):e49.
44. Laes JF, etal., Cytogenet Cell Genet 2001;92(1-2):130-3.
45. Lederer DJ, etal., Eur Respir J. 2009 Apr;33(4):793-6.
46. Lepisto AJ, etal., Cancer Ther. 2008;6(B):955-964.
47. MGD data from the GO Consortium
48. Mukherjee P, etal., J Immunol. 2009 Jan 1;182(1):216-24.
49. NCBI rat LocusLink and RefSeq merged data July 26, 2002
50. Nguyen GK, etal., PLoS One. 2013 Aug 14;8(8):e71628. doi: 10.1371/journal.pone.0071628.
51. Ogihara T, etal., J Pediatr. 2000 Aug;137(2):280-2.
52. Ohshimo S, etal., Sarcoidosis Vasc Diffuse Lung Dis. 2009 Jul;26(1):47-53.
53. OMIM Disease Annotation Pipeline
54. Park SY, etal., Oncol Rep. 2009 Sep;22(3):649-57.
55. RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
56. RGD automated import pipeline for gene-chemical interactions
57. RGD comprehensive gene curation
58. Samukawa T, etal., BMC Pulm Med. 2012 Sep 11;12:55. doi: 10.1186/1471-2466-12-55.
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61. Simms MS, etal., BJU Int. 1999 Aug;84(3):350-2.
62. Sirica AE, etal., Hepatology. 2008 Apr;47(4):1178-90.
63. Tanaka M, etal., Hematology. 2002 Apr;7(2):105-8.
64. Tang W, etal., World J Gastroenterol. 2005 Sep 21;11(35):5450-4.
65. Tentative Sequence Data IDs. TIGR Gene Index, Rat Data
66. Tian F, etal., Transplantation. 2011 Sep 15;92(5):529-35. doi: 10.1097/TP.0b013e318229f785.
67. Tinder TL, etal., J Immunol. 2008 Sep 1;181(5):3116-25.
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Additional References at PubMed
PMID:1569123   PMID:7698991   PMID:12477932   PMID:14999001   PMID:15326289   PMID:15710329   PMID:16240224   PMID:16472605   PMID:16502470   PMID:17187413   PMID:17545040   PMID:19056867  
PMID:19190083   PMID:19199708   PMID:23376485   PMID:23533145   PMID:24298937   PMID:29847197   PMID:31425778  


Genomics

Comparative Map Data
Muc1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rnor_6.02188,543,137 - 188,547,874 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl2188,543,137 - 188,547,874 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.02207,957,206 - 207,962,396 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.42181,399,482 - 181,403,640 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.12181,352,002 - 181,353,687 (+)NCBI
Celera2168,578,421 - 168,583,038 (+)NCBICelera
Cytogenetic Map2q34NCBI
RH 3.4 Map21155.0RGD
MUC1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl1155,185,824 - 155,192,916 (-)EnsemblGRCh38hg38GRCh38
GRCh381155,185,824 - 155,192,915 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh371155,158,300 - 155,162,768 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361153,424,924 - 153,429,324 (-)NCBINCBI36hg18NCBI36
Build 341151,971,671 - 151,975,732NCBI
Celera1128,229,565 - 128,235,983 (-)NCBI
Cytogenetic Map1q22NCBI
HuRef1126,521,570 - 126,525,810 (-)NCBIHuRef
CHM1_11156,554,155 - 156,558,213 (-)NCBICHM1_1
Muc1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39389,136,363 - 89,140,688 (+)NCBIGRCm39mm39
GRCm38389,229,056 - 89,233,381 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl389,229,057 - 89,233,381 (+)EnsemblGRCm38mm10GRCm38
MGSCv37389,032,974 - 89,037,291 (+)NCBIGRCm37mm9NCBIm37
MGSCv36389,314,979 - 89,319,296 (+)NCBImm8
Celera389,262,943 - 89,267,242 (+)NCBICelera
Cytogenetic Map3F1NCBI
cM Map339.02NCBI
Muc1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0NW_0049555451,657,728 - 1,662,112 (-)NCBIChiLan1.0ChiLan1.0
MUC1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.11134,141,969 - 134,146,791 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1134,141,969 - 134,145,850 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v01130,533,508 - 130,537,866 (-)NCBIMhudiblu_PPA_v0panPan3
MUC1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1 Ensembl742,340,375 - 42,344,690 (+)EnsemblCanFam3.1canFam3CanFam3.1
CanFam3.1742,338,939 - 42,344,690 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Muc1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
SpeTri2.0NW_0049365804,691,870 - 4,694,092 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
MUC1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1494,626,317 - 94,631,194 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.24103,409,143 - 103,413,841 (+)NCBISscrofa10.2Sscrofa10.2susScr3
MUC1
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1208,641,701 - 8,646,739 (+)NCBI
ChlSab1.1 Ensembl208,642,842 - 8,646,962 (+)Ensembl
Muc1
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046248852,339,281 - 2,343,351 (+)NCBI

Position Markers
RH94427  
Rat AssemblyChrPosition (strand)SourceJBrowse
Cytogenetic Map2q34UniSTS
RH 3.4 Map21155.0UniSTS
AU047994  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.02188,546,942 - 188,547,096NCBIRnor6.0
Rnor_5.02207,961,460 - 207,961,614UniSTSRnor5.0
RGSC_v3.42181,402,708 - 181,402,862UniSTSRGSC3.4
Celera2168,582,106 - 168,582,260UniSTS
Cytogenetic Map2q34UniSTS
Muc1  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.02188,544,901 - 188,545,963NCBIRnor6.0
Rnor_6.02188,545,075 - 188,545,963NCBIRnor6.0
Rnor_5.02207,959,593 - 207,960,481UniSTSRnor5.0
Rnor_5.02207,959,419 - 207,960,481UniSTSRnor5.0
RGSC_v3.42181,400,365 - 181,401,729UniSTSRGSC3.4
Celera2168,580,239 - 168,581,127UniSTS
Celera2168,580,065 - 168,581,127UniSTS
Cytogenetic Map2q34UniSTS
Muc1  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.02188,546,228 - 188,547,791NCBIRnor6.0
Rnor_5.02207,960,746 - 207,962,309UniSTSRnor5.0
RGSC_v3.42181,401,994 - 181,403,557UniSTSRGSC3.4
Celera2168,581,392 - 168,582,955UniSTS
Cytogenetic Map2q34UniSTS


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
2293843Kiddil6Kidney dilation QTL 63.1kidney pelvis morphology trait (VT:0004194)hydronephrosis severity score (CMO:0001208)242776916195645082Rat
1598805Memor8Memory QTL 83exploratory behavior trait (VT:0010471)average horizontal distance in proximity to the target during voluntary locomotion in an experimental apparatus (CMO:0002674)2157914311204022555Rat
70175BpQTLCluster3Blood pressure QTL cluster 34.128arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)2140566078217498545Rat
70175BpQTLCluster3Blood pressure QTL cluster 34.128arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2140566078217498545Rat
70175BpQTLCluster3Blood pressure QTL cluster 34.128arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)2140566078217498545Rat
70175BpQTLCluster3Blood pressure QTL cluster 34.128arterial blood pressure trait (VT:2000000)pulse pressure (CMO:0000292)2140566078217498545Rat
70175BpQTLCluster3Blood pressure QTL cluster 34.128arterial blood pressure trait (VT:2000000)absolute change in systolic blood pressure (CMO:0000607)2140566078217498545Rat
71113Cari2Carrageenan-induced inflammation QTL 22.70.009hypodermis integrity trait (VT:0010550)inflammatory exudate volume (CMO:0001429)2147522550217498710Rat
631266Bp132Blood pressure QTL 1320.0005arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)246537589217498710Rat
61457Niddm8Non-insulin dependent diabetes mellitus QTL 84.10.01blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)2188449158189857032Rat
61467Bp14Blood pressure QTL 142.2arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)243133606217498545Rat
61467Bp14Blood pressure QTL 142.2arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)243133606217498545Rat
61469Bp16Blood pressure QTL 165.64arterial blood pressure trait (VT:2000000)blood pressure measurement (CMO:0000003)2184730446229730446Rat
61473Bp19Blood pressure QTL 196.3arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2186611811189857032Rat
70162Bp63Blood pressure QTL 635.64arterial blood pressure trait (VT:2000000)blood pressure measurement (CMO:0000003)2184730446229730446Rat
724568Uae13Urinary albumin excretion QTL 134.4urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)2149114878225501939Rat
1331734Bp204Blood pressure QTL 2043.61192arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)2181990297240020001Rat
1331760Bp206Blood pressure QTL 2063.62454arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)256244671217498710Rat
1298074Bp164Blood pressure QTL 1640.003arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)242776916217498710Rat
1298076Bp166Blood pressure QTL 1660.0009arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2141583337217498710Rat
1298080Bp163Blood pressure QTL 1630.02arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)266828049217498710Rat
1298085Bp165Blood pressure QTL 1650.0006arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)242776916217498710Rat
1331794Bp202Blood pressure QTL 2023.66819arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2147122993240020001Rat
1331805Cm29Cardiac mass QTL 293.50746heart mass (VT:0007028)heart wet weight (CMO:0000069)2147122993240020001Rat
2307174Activ3Activity QTL 34.830.000058locomotor behavior trait (VT:0001392)number of entries into a discrete space in an experimental apparatus (CMO:0000960)2183984665228984665Rat
1581502Esta3Estrogen-induced thymic atrophy QTL 3thymus mass (VT:0004954)thymus wet weight (CMO:0000855)2142053350204585731Rat
631501Bp101Blood pressure QTL 1012.4arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2157914409217498545Rat
631507Bp105Blood pressure QTL 1050.001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)2116075644228737869Rat
631522Bp74Blood pressure QTL 740.05arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2186611811198704485Rat
1302793Bw16Body weight QTL 1650.0001body mass (VT:0001259)body weight (CMO:0000012)2169852800217498545Rat
1641891Alcrsp17Alcohol response QTL 17response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)2155965557254121739Rat
1641925Alcrsp2Alcohol response QTL 2response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)2155965557237742948Rat
1598833Bp295Blood pressure QTL 2953.5arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2161745602206745602Rat
1598838Bp290Blood pressure QTL 2901.9arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2181522444226522444Rat
2301415Cm67Cardiac mass QTL 670.003heart mass (VT:0007028)heart wet weight to body weight ratio (CMO:0002408)2172795683189857032Rat
634308Sach6Saccharin preference QTL 64.9taste sensitivity trait (VT:0001986)saccharin intake volume to total fluid intake volume ratio (CMO:0001601)2116075644228737869Rat
1358356Srcrt1Stress Responsive Cort QTL13.66blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)2175403337239166203Rat
1578648Bss11Bone structure and strength QTL 114.7femur morphology trait (VT:0000559)femoral neck cortical cross-sectional area (CMO:0001702)2118446646227707979Rat
1300165Rf9Renal function QTL 93.28kidney glomerulus integrity trait (VT:0010546)index of glomerular damage (CMO:0001135)2138901276217498710Rat
1354601Slep1Serum leptin concentration QTL 15.39blood leptin amount (VT:0005667)serum leptin level (CMO:0000780)243149788198704485Rat
1354605Rf48Renal function QTL 482.9blood creatinine amount (VT:0005328)plasma creatinine level (CMO:0000537)275687495221880419Rat
1354609Niddm62Non-insulin dependent diabetes mellitus QTL 624.720.000006insulin secretion trait (VT:0003564)plasma insulin level (CMO:0000342)2158159186217498710Rat
1354622Kidm16Kidney mass QTL 163kidney mass (VT:0002707)left kidney wet weight (CMO:0000083)283819608239166203Rat
1354648Bp239Blood pressure QTL 2390.001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)266828236243550655Rat
1354649Kidm17Kidney mass QTL 172.9kidney mass (VT:0002707)calculated kidney weight (CMO:0000160)283819608243901375Rat
2301966Bp322Blood pressure QTL 3223.58arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2158159186217498710Rat
1359022Ppulsi1Prepulse inhibition QTL 13.63prepulse inhibition trait (VT:0003088)acoustic startle response measurement (CMO:0001519)2142053350228984665Rat
1549833Bp257Blood pressure QTL 2570.003arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)2181987080199696953Rat
1554319Bmd2Bone mineral density QTL 213.40.0001lumbar vertebra area (VT:0010570)lumbar vertebra cross-sectional area (CMO:0001689)2118446793228582621Rat
2306901Bp337Blood pressure QTL 3370.01arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2177680772243901375Rat
1358913Cm41Cardiac mass QTL 412.73heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)223837491218957222Rat
1358917Cm42Cardiac mass QTL 422.82heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)223837491218957222Rat
1359030Bp277Blood pressure QTL 277arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2118446646200453484Rat
1359030Bp277Blood pressure QTL 277arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)2118446646200453484Rat
1359032Hrtrt18Heart rate QTL 18heart pumping trait (VT:2000009)heart rate (CMO:0000002)2169852670207612467Rat
61374Edpm2Estrogen-dependent pituitary mass QTL 24.420.86pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)278321410217498710Rat
61401Niddm2Non-insulin dependent diabetes mellitus QTL 24.54blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)2159585731204585731Rat
6903312Bw112Body weight QTL 1123.20.0013body mass (VT:0001259)body weight (CMO:0000012)2149614623198704357Rat
7488904Bp363Blood pressure QTL 3630.001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)2186889035189857032Rat
7488925Bp364Blood pressure QTL 3640.001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)2174160958219160958Rat
7488927Bp365Blood pressure QTL 3650.008arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)2177339806222339806Rat
8662843Vetf9Vascular elastic tissue fragility QTL 92.05thoracic aorta molecular composition trait (VT:0010568)aorta wall extracellular elastin dry weight to aorta wall extracellular collagen weight ratio (CMO:0002003)2169852670243026643Rat
8662832Vetf7Vascular elastic tissue fragility QTL 73.5aorta elastin amount (VT:0003905)aorta wall extracellular elastin dry weight to aorta wall dry weight ratio (CMO:0002002)283754907237610852Rat
10043136Iddm54Insulin dependent diabetes mellitus QTL 543.40.0001blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)2149614466205573168Rat
10043136Iddm54Insulin dependent diabetes mellitus QTL 543.40.0001blood glucose amount (VT:0000188)age at onset/diagnosis of type 1 diabetes mellitus (CMO:0001140)2149614466205573168Rat
12879846Cm90Cardiac mass QTL 900.011heart right ventricle mass (VT:0007033)heart right ventricle weight to body weight ratio (CMO:0000914)2172795683189857032Rat
12879836Kidm61Kidney mass QTL 610.001kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)2172795683199696953Rat
10755499Bp389Blood pressure QTL 3892.61arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)216679272245624402Rat
12879839Cm85Cardiac mass QTL 850.001heart mass (VT:0007028)heart wet weight to body weight ratio (CMO:0002408)2172795683199696953Rat
11565181Bw176Body weight QTL 1760.002body mass (VT:0001259)body weight (CMO:0000012)2172795683189857032Rat
12879838Cm86Cardiac mass QTL 860.002heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)2172795683199696953Rat
12879840Bw179Body weight QTL 1790.005body mass (VT:0001259)body weight (CMO:0000012)2172795683199696953Rat
12879845Cm89Cardiac mass QTL 890.008heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)2172795683189857032Rat
11565180Kidm56Kidney mass QTL 560.003kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)2172795683189857032Rat
12879837Am2Aortic mass QTL 20.001aorta mass (VT:0002845)aorta weight to aorta length to body weight ratio (CMO:0002722)2172795683199696953Rat
12879847Am4Aortic mass QTL 40.001aorta mass (VT:0002845)aorta weight to aorta length to body weight ratio (CMO:0002722)2172795683189857032Rat


Genetic Models
This gene Muc1 is modified in the following models/strains
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:57
Count of miRNA genes:48
Interacting mature miRNAs:56
Transcripts:ENSRNOT00000027850
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 25 9 11
Low 3 20 33 33 8 33 66 10 30
Below cutoff 15 19 8 11 8 7 8 8 2 7

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000027850   ⟹   ENSRNOP00000027850
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl2188,543,137 - 188,547,874 (+)Ensembl
RefSeq Acc Id: NM_012602   ⟹   NP_036734
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.02188,543,137 - 188,547,874 (+)NCBI
Rnor_5.02207,957,206 - 207,962,396 (+)NCBI
RGSC_v3.42181,399,482 - 181,403,640 (+)RGD
Celera2168,578,421 - 168,583,038 (+)RGD
Sequence:
Protein Sequences
Protein RefSeqs NP_036734 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAB62948 (Get FASTA)   NCBI Sequence Viewer  
  AAI66505 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: NP_036734   ⟸   NM_012602
- Peptide Label: precursor
- UniProtKB: B2GV31 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000027850   ⟸   ENSRNOT00000027850
Protein Domains
SEA

Transcriptome

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

Promoters
RGD ID:13691464
Promoter ID:EPDNEW_R1989
Type:single initiation site
Name:Muc1_1
Description:mucin 1, cell surface associated
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_6.02188,543,130 - 188,543,190EPDNEW

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
2 207959209 207959210 A G snv COP/CrCrl (MCW & UW), SS/JrHsdMcwi (MCW), SBN/Ygl (MCW), F344/DuCrlCrlj (KyushuU), ACI/EurMcwi (MCW), FHL/EurMcwi (MCW)
2 207959261 207959262 A C snv COP/CrCrl (MCW & UW), LE/OrlBarth (UDEL), SDLEF7/Barth (UDEL), MNS/Gib (KNAW), LEW/NCrl (KNAW), LEW/Crl (KNAW), LE/Stm (Illumina) (KNAW), F344/NHsd (KNAW), F344/NCrl (KNAW), DA/BklArbNsi (KNAW), F344/NRrrc (Illumina) (KNAW), SBN/Ygl (KNAW), BBDP/WorN (KNAW), SS/JrHsdMcwi (KNAW), SS/Jr (KNAW), GH/OmrMcwi (MCW), SBH/Ygl (MCW), FHL/EurMcwi (MCW), SBN/Ygl (MCW), SS/JrHsdMcwi (MCW), ACI/EurMcwi (MCW), LN/MavRrrc (KNAW)
2 207959261 207959262 A T snv COP/CrCrl (MCW & UW), ACI/EurMcwi (MCW)
2 207959269 207959270 A G snv SBN/Ygl (MCW), COP/CrCrl (MCW & UW), SS/JrHsdMcwi (MCW), GH/OmrMcwi (MCW), SDLEF7/Barth (UDEL), ACI/EurMcwi (MCW), LE/OrlBarth (UDEL)
2 207959281 207959282 G A snv COP/CrCrl (MCW & UW)
2 207959296 207959297 G T snv KFRS3B/Kyo (KyushuU), COP/CrCrl (MCW & UW), ACI/EurMcwi (MCW)
2 207960235 207960236 G A snv ZF (KyushuU), RCS/Kyo (KyushuU), SR/JrHsd (KNAW), LL/MavRrrc (KNAW), ZFDM (KyushuU), SR/JrHsd (MCW), LH/MavRrrc (KNAW)


Assembly: Rnor_6.0

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
2 188544743 188544744 A C snv COP/CrCrl (MCW & UW), SS/JrHsdMcwi (MCW), F344/NRrrc (MCW), M520/N (MCW), SBN/Ygl (MCW), GH/OmrMcwi (MCW), SBH/Ygl (MCW), FHL/EurMcwi (MCW), MR/N (MCW), ACI/EurMcwi (MCW)
2 188544751 188544752 A G snv SS/JrHsdMcwi (MCW), SBN/Ygl (MCW), GH/OmrMcwi (MCW), COP/CrCrl (MCW & UW)
2 188544778 188544779 G T snv COP/CrCrl (MCW & UW)
2 188545717 188545718 G A snv SR/JrHsd (RGD), LH/MavRrrc (RGD), LL/MavRrrc (RGD), SR/JrHsd (MCW)


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:3122 AgrOrtholog
Ensembl Genes ENSRNOG00000020539 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000027850 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000027850 UniProtKB/TrEMBL
Gene3D-CATH 3.30.70.960 UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7122817 IMAGE-MGC_LOAD
InterPro Mucin-1 UniProtKB/TrEMBL
  SEA UniProtKB/TrEMBL
  SEA_dom_sf UniProtKB/TrEMBL
KEGG Report rno:24571 UniProtKB/TrEMBL
MGC_CLONE MGC:188069 IMAGE-MGC_LOAD
NCBI Gene 24571 ENTREZGENE
PANTHER PTHR10006 UniProtKB/TrEMBL
Pfam SEA UniProtKB/TrEMBL
PhenoGen Muc1 PhenoGen
PROSITE SEA UniProtKB/TrEMBL
SMART SEA UniProtKB/TrEMBL
Superfamily-SCOP SSF82671 UniProtKB/TrEMBL
TIGR TC219475
UniGene Rn.10779 ENTREZGENE
UniProt B2GV31 ENTREZGENE, UniProtKB/TrEMBL
  O35770_RAT UniProtKB/TrEMBL
UniProt Secondary F1LMZ5 UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-08-29 Muc1  mucin 1, cell surface associated  Muc1  mucin 1, transmembrane  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2004-09-10 Muc1  mucin 1, transmembrane    mucin 1  Name updated 1299863 APPROVED
2002-06-10 Muc1  Mucin1      Symbol and Name status set to approved 70586 APPROVED

RGD Curation Notes
Note Type Note Reference
gene_expression expression is decreased at Day 5 of pregnancy in the uterine epithelium 633409