Muc5ac (mucin 5AC, oligomeric mucus/gel-forming) - Rat Genome Database

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Gene: Muc5ac (mucin 5AC, oligomeric mucus/gel-forming) Rattus norvegicus
Analyze
Symbol: Muc5ac
Name: mucin 5AC, oligomeric mucus/gel-forming
RGD ID: 62001
Description: Involved in several processes, including cellular response to epidermal growth factor stimulus; cellular response to lipid; and response to vitamin A. Localizes to extracellular space. Used to study chronic obstructive pulmonary disease; dry eye syndrome; gastric ulcer; and stomach disease. Biomarker of asthma; gastric ulcer; otitis media; pulmonary fibrosis; and rhinitis (multiple). Human ortholog(s) of this gene implicated in dry eye syndrome. Orthologous to human MUC5AC (mucin 5AC, oligomeric mucus/gel-forming); INTERACTS WITH (+)-alpha-tocopherol; (E)-roxithromycin; 1,8-cineole.
Type: protein-coding
RefSeq Status: MODEL
Also known as: LOC682837; LOW QUALITY PROTEIN: mucin-5AC; mucin 5, subtypes A and C; mucin 5, subtypes A and C, tracheobronchial/gastric; mucin-5AC; similar to mucin 5, subtype B, tracheobronchial
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
mRatBN7.21196,864,375 - 196,896,475 (+)NCBI
Rnor_6.01214,725,482 - 214,756,653 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01221,642,507 - 221,671,770 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Celera1194,493,496 - 194,524,940 (+)NCBICelera
Cytogenetic Map1q41NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(+)-alpha-tocopherol  (EXP)
(E)-roxithromycin  (EXP)
(R)-mevalonic acid  (ISO)
1,2-dimethylhydrazine  (ISO)
1,8-cineole  (EXP)
2,2',4,4'-Tetrabromodiphenyl ether  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (ISO)
2,4-dibromophenyl 2,4,5-tribromophenyl ether  (ISO)
6alpha-methylprednisolone  (EXP)
8'-apo-beta,psi-caroten-8'-al  (ISO)
9-cis-retinoic acid  (ISO)
acrolein  (EXP,ISO)
afatinib  (ISO)
aflatoxin B1  (ISO)
aflatoxin M1  (ISO)
all-trans-4-hydroxyretinoic acid  (ISO)
all-trans-4-oxoretinoic acid  (ISO)
all-trans-4-oxoretinol  (ISO)
all-trans-retinoic acid  (ISO)
all-trans-retinol  (ISO)
allyl isothiocyanate  (ISO)
amitrole  (ISO)
anthra[1,9-cd]pyrazol-6(2H)-one  (ISO)
benzo[a]pyrene  (ISO)
benzo[b]fluoranthene  (ISO)
beta-carotene  (ISO)
bleomycin A2  (EXP,ISO)
butanal  (ISO)
cadmium dichloride  (ISO)
capsaicin  (ISO)
capsazepine  (ISO)
carbon nanotube  (ISO)
ceric oxide  (ISO)
chlorphenamine  (ISO)
chromium(6+)  (ISO)
citric acid  (ISO)
coniferyl aldehyde  (ISO)
decabromodiphenyl ether  (ISO)
Deguelin  (ISO)
deoxynivalenol  (ISO)
desferrioxamine B  (ISO)
dexamethasone  (ISO)
dihydroxyacetone  (ISO)
dimethyl sulfoxide  (ISO)
dioxygen  (ISO)
elemental selenium  (ISO)
emodin  (ISO)
erlotinib hydrochloride  (ISO)
ethyl methanesulfonate  (ISO)
Fidarestat  (ISO)
flavonoids  (EXP)
fluoranthene  (ISO)
formaldehyde  (ISO)
fumonisin B1  (ISO)
gamma-tocopherol  (EXP)
gefitinib  (ISO)
glycerol  (EXP)
glycyrrhizinic acid  (ISO)
histamine  (ISO)
hydrogen peroxide  (ISO)
kaempferol  (ISO)
lead diacetate  (ISO)
leukotriene B4  (EXP)
leukotriene C4  (EXP)
leukotriene D4  (EXP)
leukotriene E4  (EXP)
lipopolysaccharide  (EXP,ISO)
LY294002  (ISO)
methyl methanesulfonate  (ISO)
MK 571  (EXP,ISO)
N-acetyl-L-cysteine  (ISO)
N-benzyloxycarbonyl-L-leucyl-L-leucyl-L-leucinal  (ISO)
naringin  (ISO)
nickel atom  (ISO)
Niflumic acid  (ISO)
Nivalenol  (ISO)
ochratoxin A  (ISO)
ozone  (EXP,ISO)
paracetamol  (ISO)
paraquat  (ISO)
phorbol 13-acetate 12-myristate  (EXP,ISO)
platycodin D  (ISO)
platycodin D3  (ISO)
potassium dichromate  (ISO)
quercetin  (ISO)
reactive oxygen species  (ISO)
resveratrol  (EXP,ISO)
SB 203580  (ISO)
scopolamine  (EXP,ISO)
selenium atom  (ISO)
simvastatin  (EXP,ISO)
sodium arsenite  (ISO)
sodium dichromate  (EXP)
sulforaphane  (ISO)
tebuconazole  (ISO)
tobramycin  (ISO)
triamcinolone acetonide  (EXP)
trimellitic anhydride  (ISO)
triptonide  (ISO)
tyrphostin AG 1478  (ISO)
vanadium atom  (ISO)
vanadium(0)  (ISO)
vitamin E  (EXP)
zearalenone  (ISO)
zileuton  (EXP,ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component
cytoplasm  (ISO)
extracellular space  (IDA,ISO)

Molecular Function

References

References - curated
1. Aishima S, etal., Histopathology. 2006 Jul;49(1):35-44.
2. Balague C, etal., Gastroenterology. 1994 Apr;106(4):1054-61.
3. Balague C, etal., Gastroenterology. 1995 Sep;109(3):953-64.
4. Boonla C, etal., Cancer. 2003 Oct 1;98(7):1438-43.
5. Boonla C, etal., World J Gastroenterol. 2005 Aug 28;11(32):4939-46.
6. Cao L, etal., Arzneimittelforschung. 2011;61(12):685-92. doi: 10.1055/s-0031-1300588.
7. Cao W, etal., Hum Pathol. 2010 Apr;41(4):513-21. Epub 2009 Dec 1.
8. Caramori G, etal., Histopathology. 2009 Sep;55(3):321-31.
9. Chang HJ, etal., Pathol Int. 2004 Aug;54(8):576-84.
10. Chen L, etal., Arch Med Res. 2009 Jan;40(1):10-7.
11. Cho HY, etal., Toxicol Sci. 1999 Sep;51(1):135-45.
12. Choo D, etal., J Trauma. 2002 Apr;52(4):720-5; discussion 725-6.
13. Cortijo J, etal., Br J Pharmacol. 2009 Feb;156(3):534-44.
14. Dogru M, etal., Allergy. 2008 Oct;63(10):1324-34. doi: 10.1111/j.1398-9995.2008.01781.x.
15. Dogru M, etal., Curr Eye Res. 2005 Oct;30(10):897-908.
16. Floyd AM, etal., PLoS One. 2012;7(12):e50704. doi: 10.1371/journal.pone.0050704. Epub 2012 Dec 18.
17. Fortin M, etal., Cytokine. 2010 Aug 7.
18. Gomi A, etal., J Dairy Sci. 2013 Feb;96(2):832-7. doi: 10.3168/jds.2012-5950. Epub 2012 Nov 29.
19. Guzman K, etal., Am J Physiol 1996 May;270(5 Pt 1):L846-53.
20. Hashimoto K, etal., Am J Respir Crit Care Med. 2004 Aug 1;170(3):306-12. Epub 2004 May 6.
21. Hasnain SZ, etal., Gastroenterology. 2010 May;138(5):1763-71. doi: 10.1053/j.gastro.2010.01.045. Epub 2010 Feb 4.
22. Henke MO, etal., Am J Respir Crit Care Med. 2007 Apr 15;175(8):816-21. Epub 2007 Jan 25.
23. Hewson CA, etal., Eur Respir J. 2010 Dec;36(6):1425-35. Epub 2010 Jun 4.
24. Inatomi T, etal., Biochem Biophys Res Commun 1997 Jul 30;236(3):789-97.
25. Jankovic Velickovic L, etal., Pathol Res Pract. 2007;203(9):653-8. Epub 2007 Jul 30.
26. Kerschner JE, etal., Arch Otolaryngol Head Neck Surg. 2010 Aug;136(8):819-24. doi: 10.1001/archoto.2010.123.
27. Kim DH and Yeo SW, Int J Pediatr Otorhinolaryngol. 2013 Jan;77(1):117-22. doi: 10.1016/j.ijporl.2012.10.008. Epub 2012 Nov 3.
28. Kim DY and Yang WM, J Ethnopharmacol. 2011 Jun 14;136(1):230-5. doi: 10.1016/j.jep.2011.04.048. Epub 2011 Apr 28.
29. Kim JH, etal., Chest. 2004 Sep;126(3):888-95.
30. Kim YT, etal., Acta Otolaryngol. 2001 Apr;121(3):364-70.
31. Lee KT and Liu TS, Dig Dis Sci. 2001 Oct;46(10):2166-72.
32. Li R, etal., Regul Toxicol Pharmacol. 2007 Aug;48(3):284-91. Epub 2007 May 21.
33. Li SL, etal., Zhonghua Er Bi Yan Hou Tou Jing Wai Ke Za Zhi. 2011 Dec;46(12):1009-18.
34. Lin Z, etal., Mol Vis. 2011 Jan 25;17:257-64.
35. Liu W, etal., Mol Vis. 2010 Nov 9;16:2342-6.
36. Lu W, etal., Am J Physiol Lung Cell Mol Physiol. 2005 Jan;288(1):L52-60. Epub 2004 Sep 10.
37. Lü H, etal., Lin Chuang Er Bi Yan Hou Ke Za Zhi. 2004 Nov;18(11):649-50.
38. Mata M, etal., Eur Respir J. 2003 Dec;22(6):900-5.
39. Matull WR, etal., Br J Cancer. 2008 May 20;98(10):1675-81. Epub 2008 May 13.
40. MGD data from the GO Consortium
41. Nam SY, etal., Dig Dis Sci. 2005 Nov;50(11):2110-20.
42. NCBI rat LocusLink and RefSeq merged data July 26, 2002
43. RGD automated import pipeline for gene-chemical interactions
44. RGD comprehensive gene curation
45. Sajjan U, etal., Am J Physiol Lung Cell Mol Physiol. 2009 Nov;297(5):L931-44. Epub 2009 Sep 11.
46. Shahzeidi S, etal., Exp Lung Res. 2003 Dec;29(8):549-65.
47. Song JS, etal., Korean J Intern Med. 2001 Sep;16(3):167-72.
48. Song XJ, etal., Invest Ophthalmol Vis Sci. 2003 Oct;44(10):4223-9.
49. Souchier M, etal., Br J Ophthalmol. 2006 Nov;90(11):1366-9. Epub 2006 Jun 29.
50. Tan YF, etal., Eur Rev Med Pharmacol Sci. 2011 Jul;15(7):743-50.
51. Tei M, etal., Invest Ophthalmol Vis Sci. 2000 Jan;41(1):82-8.
52. Tian C, etal., PLoS One. 2012;7(4):e34944. doi: 10.1371/journal.pone.0034944. Epub 2012 Apr 23.
53. Tsubokawa D, etal., Exp Parasitol. 2012 Mar;130(3):209-17. doi: 10.1016/j.exppara.2012.01.002. Epub 2012 Jan 18.
54. Van De Bovenkamp JH, etal., Hum Pathol. 2003 Feb;34(2):156-65.
55. Viau S, etal., Graefes Arch Clin Exp Ophthalmol. 2009 Aug;247(8):1039-50. Epub 2009 May 5.
56. Wagner JG, etal., Toxicol Pathol. 2009 Jun;37(4):481-91. doi: 10.1177/0192623309335630. Epub 2009 Apr 23.
57. Wang K, etal., Cell Biol Int. 2007 Nov;31(11):1388-95. Epub 2007 Jun 29.
58. Wang K, etal., Chin Med J (Engl). 2007 Jun 20;120(12):1051-7.
59. Wang W and Zheng M, Otolaryngol Head Neck Surg. 2012 Dec;147(6):1012-9. doi: 10.1177/0194599812460977. Epub 2012 Sep 12.
60. Wang Y, etal., Bone Marrow Transplant. 2008 Feb;41(3):293-302. Epub 2007 Nov 5.
61. Wang Y, etal., Int J Cancer. 2007 Dec 15;121(12):2716-22.
62. Yamasaki H, etal., Int J Oncol. 2004 Jan;24(1):107-13.
63. Yonezawa S, etal., Pathol Int. 1999 Jan;49(1):45-54.
64. Yu DF, etal., Exp Eye Res. 2008 Feb;86(2):403-11. doi: 10.1016/j.exer.2007.11.013. Epub 2007 Nov 28.
65. Yue T, etal., Mol Cell Proteomics. 2009 Jul;8(7):1697-707. Epub 2009 Apr 17.
66. Zhang J, etal., Cornea. 2013 Jul;32(7):928-32. doi: 10.1097/ICO.0b013e3182801622.
Additional References at PubMed
PMID:11992401   PMID:14749330   PMID:15632090   PMID:16229173   PMID:17066439   PMID:17203232   PMID:17426222   PMID:19199708   PMID:19558866   PMID:21265101   PMID:22489685   PMID:22931723  
PMID:24975055   PMID:25591774   PMID:26850552   PMID:31170201  


Genomics

Comparative Map Data
Muc5ac
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21196,864,375 - 196,896,475 (+)NCBI
Rnor_6.01214,725,482 - 214,756,653 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01221,642,507 - 221,671,770 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Celera1194,493,496 - 194,524,940 (+)NCBICelera
Cytogenetic Map1q41NCBI
MUC5AC
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl111,157,953 - 1,201,138 (+)EnsemblGRCh38hg38GRCh38
GRCh38111,157,953 - 1,201,138 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh37111,151,580 - 1,222,364 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36111,169,363 - 1,178,940 (+)NCBINCBI36hg18NCBI36
Build 34111,141,594 - 1,152,361NCBI
Celera111,216,270 - 1,325,135 (+)NCBI
Cytogenetic Map11p15.5NCBI
HuRef11979,261 - 1,006,024 (+)NCBIHuRef
CHM1_1111,150,471 - 1,221,279 (+)NCBICHM1_1
Muc5ac
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm397141,342,695 - 141,372,964 (+)NCBIGRCm39mm39
GRCm39 Ensembl7141,342,709 - 141,372,968 (+)Ensembl
GRCm387141,788,958 - 141,819,227 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl7141,788,972 - 141,819,231 (+)EnsemblGRCm38mm10GRCm38
MGSCv377148,974,916 - 149,005,040 (+)NCBIGRCm37mm9NCBIm37
MGSCv367148,974,916 - 149,005,040 (+)NCBImm8
Celera7141,544,129 - 141,573,772 (+)NCBICelera
Cytogenetic Map7F5NCBI
cM Map787.23NCBI
Muc5ac
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0NW_00495547611,061,405 - 11,084,294 (-)NCBIChiLan1.0ChiLan1.0
MUC5AC
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.1111,225,362 - 1,272,411 (+)NCBIpanpan1.1PanPan1.1panPan2
Mhudiblu_PPA_v0111,191,223 - 1,234,373 (+)NCBIMhudiblu_PPA_v0panPan3
MUC5AC
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11845,471,232 - 45,498,961 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1844,080,267 - 44,110,233 (+)NCBI
ROS_Cfam_1.01846,149,914 - 46,180,208 (+)NCBI
UMICH_Zoey_3.11845,598,266 - 45,628,540 (+)NCBI
UNSW_CanFamBas_1.01845,178,618 - 45,208,933 (+)NCBI
UU_Cfam_GSD_1.01845,916,410 - 45,946,691 (+)NCBI
Muc5ac
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024404947875,887 - 905,133 (+)NCBI
SpeTri2.0NW_004936816129,926 - 159,396 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
MUC5AC
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.12757,897 - 790,321 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
MUC5AC
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11981,515 - 1,018,242 (+)NCBI
Muc5ac
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462476621,439,023 - 21,461,108 (-)NCBI

Position Markers
D1Bda42  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.01214,756,331 - 214,756,596NCBIRnor6.0
Rnor_5.01221,671,448 - 221,671,713UniSTSRnor5.0
Celera1194,524,618 - 194,524,883UniSTS
RH141818  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.01214,756,300 - 214,756,480NCBIRnor6.0
Rnor_5.01221,671,417 - 221,671,597UniSTSRnor5.0
Celera1194,524,587 - 194,524,767UniSTS
RH 3.4 Map11437.21UniSTS


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
70209Niddm23Non-insulin dependent diabetes mellitus QTL 232.82blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)199983293216325819Rat
619613Bp77Blood pressure QTL 770.01arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)1175447029220447029Rat
619613Bp77Blood pressure QTL 770.01arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1175447029220447029Rat
619614Bp78Blood pressure QTL 780.001arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)1184419946215097919Rat
619614Bp78Blood pressure QTL 780.001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1184419946215097919Rat
631205Bp196Blood pressure QTL 19640.0001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1126240667217054291Rat
631214Bw61Body weight QTL613.40.0001intramuscular adipose amount (VT:0010044)intramuscular fat area (CMO:0001162)1193220385238220385Rat
2302378Insul11Insulin level QTL 113.25blood insulin amount (VT:0001560)serum insulin level (CMO:0000358)1156446196274977688Rat
631260Tcas2Tongue tumor susceptibility QTL 24.93tongue integrity trait (VT:0010553)number of squamous cell tumors of the tongue with diameter greater than 3 mm (CMO:0001950)1210019247217054418Rat
70163Bw20Body weight QTL 205.1body mass (VT:0001259)body weight (CMO:0000012)1189514504234514504Rat
724531Uae5Urinary albumin excretion QTL 54urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)1161321152273792054Rat
724559Pancm1Pancreatic morphology QTL 17.1islet of Langerhans morphology trait (VT:0005215)pancreatic islet damage composite score (CMO:0001156)1198585664236763415Rat
724562Rends1Renal damage susceptibility QTL 10.05kidney glomerulus integrity trait (VT:0010546)index of glomerular damage (CMO:0001135)1137787261236763528Rat
1331749Hrtrt11Heart rate QTL 112.973heart pumping trait (VT:2000009)heart rate (CMO:0000002)199983293216213510Rat
737828Hcas3Hepatocarcinoma susceptibility QTL 34.9liver integrity trait (VT:0010547)liver tumorous lesion volume to total liver volume ratio (CMO:0001082)1156446196243311614Rat
737977Bp160Blood pressure QTL 1600.001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1197963658242963658Rat
1354580Scort1Serum corticosterone level QTL 13.4blood corticosterone amount (VT:0005345)blood corticosterone level (CMO:0001172)1167394665278228889Rat
1582206Kidm33Kidney mass QTL 336.9kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)1205603081244401301Rat
731168Bp154Blood pressure QTL 1543.4arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1100131562236763528Rat
738032Hcas5Hepatocarcinoma susceptibility QTL 53.12liver integrity trait (VT:0010547)liver tumorous lesion number (CMO:0001068)1191825895279986079Rat
631549Bp89Blood pressure QTL 895.7arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1130779320219238476Rat
1302787Stl25Serum triglyceride level QTL 252.70.0073blood triglyceride amount (VT:0002644)plasma triglyceride level (CMO:0000548)1197187728230420772Rat
1598853Memor3Memory QTL 34.5exploratory behavior trait (VT:0010471)total horizontal distance resulting from voluntary locomotion in an experimental apparatus (CMO:0001443)1153834077232297227Rat
2300161Bmd43Bone mineral density QTL 438.40.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)1189170900234170900Rat
2300174Bmd42Bone mineral density QTL 428.40.0001lumbar vertebra mineral mass (VT:0010511)bone mineral density (CMO:0001226)1189170900234170900Rat
2300187Bmd41Bone mineral density QTL 418.90.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)1189170900234170900Rat
2293654Bss30Bone structure and strength QTL 3032.650.0001femur strength trait (VT:0010010)femur midshaft polar moment of inertia (CMO:0001669)1189170900234170900Rat
2293673Bss27Bone structure and strength QTL 2718.630.0001femur morphology trait (VT:0000559)femur midshaft cortical cross-sectional area (CMO:0001663)1189170900234170900Rat
2293677Bss41Bone structure and strength QTL 419.380.0001lumbar vertebra size trait (VT:0010518)lumbar vertebra cross-sectional area (CMO:0001689)1189170900234170900Rat
2293689Bss47Bone structure and strength QTL 477.250.0001lumbar vertebra size trait (VT:0010518)lumbar vertebra trabecular cross-sectional area (CMO:0001692)1189170900234170900Rat
2293693Bss22Bone structure and strength QTL 2233.520.0001femur morphology trait (VT:0000559)femur cross-sectional area (CMO:0001661)1189170900234170900Rat
631838Niddm36Non-insulin dependent diabetes mellitus QTL 360.01insulin secretion trait (VT:0003564)calculated pancreatic islet insulin release measurement (CMO:0001217)1205195290250195290Rat
634312Bp143Blood pressure QTL 14330.0002arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1198446729240017341Rat
634314Niddm44Non-insulin dependent diabetes mellitus QTL 44blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)149578693217054291Rat
634321Hc1Hypercalciuria QTL 12.91urine calcium amount (VT:0002985)urine calcium excretion rate (CMO:0000763)1193968438261264776Rat
634338Hcar4Hepatocarcinoma resistance QTL 44.6liver integrity trait (VT:0010547)liver tumorous lesion number to liver area ratio (CMO:0001210)1210960636236763528Rat
1600363Hc6Hypercalciuria QTL 62.7urine calcium amount (VT:0002985)urine calcium excretion rate (CMO:0000763)1195598053265002735Rat
1600380Niddm70Non-insulin dependent diabetes mellitus QTL 703.10.0008blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)1194554354239554354Rat
1600388Niddm67Non-insulin dependent diabetes mellitus QTL 675.840.000004blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)1213476630278978026Rat
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
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
1578780Cm52Cardiac mass QTL 523.30.0001heart mass (VT:0007028)heart wet weight (CMO:0000069)182788437239853971Rat
1300145Rf7Renal function QTL 72.96urine creatinine amount (VT:0010540)urine creatinine level (CMO:0000125)1201146802241482368Rat
1354591Cm36Cardiac mass QTL 364.1heart left ventricle mass (VT:0007031)calculated heart weight (CMO:0000073)1108986301219232156Rat
1354602Bw35Body weight QTL 3512.2body mass (VT:0001259)body weight (CMO:0000012)1161784169219232156Rat
1354606Bp246Blood pressure QTL 2463.6arterial blood pressure trait (VT:2000000)pulse pressure (CMO:0000292)1108986301238830534Rat
1354610Bw34Body weight QTL 344.1body mass (VT:0001259)body weight (CMO:0000012)1161784169278228889Rat
1354615Cm32Cardiac mass QTL 325.2heart left ventricle mass (VT:0007031)heart left ventricle wet weight (CMO:0000071)1108986301219232156Rat
1354618Kidm15Kidney mass QTL 155kidney mass (VT:0002707)left kidney wet weight (CMO:0000083)1167394665219232156Rat
1354620Kidm19Kidney mass QTL 194kidney mass (VT:0002707)calculated kidney weight (CMO:0000160)1161784169219232156Rat
1354624Cm35Cardiac mass QTL355.7heart left ventricle mass (VT:0007031)calculated heart weight (CMO:0000073)1192639698278228889Rat
1354634Kidm12Kidney mass QTL 123.9kidney mass (VT:0002707)right kidney wet weight (CMO:0000082)1161784169219232156Rat
1354636Lmblg1Limb length QTL 16.4tibia length (VT:0004357)tibia length (CMO:0000450)1161784169219232156Rat
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
1354653Despr9Despair related QTL 90.00019locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)1185390068230390068Rat
1354661Bw33Body weight QTL 335.2body mass (VT:0001259)body weight (CMO:0000012)1161784169278228889Rat
1359018Hrtrt20Heart rate QTL 203.08heart pumping trait (VT:2000009)heart rate (CMO:0000002)1201358068221983732Rat
1558658Bw59Body weight QTL 593.50.0003body mass (VT:0001259)body weight (CMO:0000012)1196738546241738546Rat
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
2292222Bp307Blood pressure QTL 3073.060.0014arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1174905700233490237Rat
2293083Iddm25Insulin dependent diabetes mellitus QTL 254.18blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)1198655722244992610Rat
2312420Pur17Proteinuria QTL 177.10.0001urine protein amount (VT:0005160)urine total protein excretion rate (CMO:0000756)1167394665238830534Rat
2312564Glom18Glomerulus QTL 182.40.003kidney glomerulus morphology trait (VT:0005325)index of glomerular damage (CMO:0001135)1201358068252480016Rat
2303622Vencon6Ventilatory control QTL 60.001respiration trait (VT:0001943)respiration rate (CMO:0000289)1169971964214971964Rat
1358886Bp260Blood pressure QTL 2603.67arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1161784422246226103Rat
1358898Bp255Blood pressure QTL 2553.6arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1208517798266948272Rat
1549830Bss1Bone structure and strength QTL 14.8femur strength trait (VT:0010010)femur ultimate force (CMO:0001675)1190282646235282646Rat
1358294Bw37Body weight QTL 3750.000011body mass (VT:0001259)body weight (CMO:0000012)1188850303233850303Rat
61341Bp26Blood pressure QTL 26arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1137787261236763528Rat
61347Bp197Blood pressure QTL 1974.2arterial blood pressure trait (VT:2000000)blood pressure measurement (CMO:0000003)1175462885220462885Rat
61348Bp30Blood pressure QTL 302.4arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1154337847215828102Rat
6480780Insul18Insulin level QTL 184.11blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)1206950905218614387Rat
6903303Scl34Serum cholesterol QTL 342.50.0033blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)1197187728238220385Rat
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
7771612Cm80Cardiac mass QTL 808.4heart left ventricle mass (VT:0007031)heart left ventricle weight (CMO:0000776)1144634295241482368Rat
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
8655855Arrd3Age-related retinal degeneration QTL 33.07lens clarity trait (VT:0001304)cataract incidence/prevalence measurement (CMO:0001585)1202571665264802994Rat
10059590Kidm44Kidney mass QTL 443.420.025kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)1210990171255990171Rat
10059597Bp377Blood pressure QTL 3773.420.025arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)135377692217372257Rat
10059600Bp378Blood pressure QTL 3783.080.05arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1194872362239872362Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:73
Count of miRNA genes:64
Interacting mature miRNAs:73
Transcripts:ENSRNOT00000071485
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


Sequence


Reference Sequences
RefSeq Acc Id: XM_001063331   ⟹   XP_001063331
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Celera1194,493,496 - 194,524,940 (+)NCBI
Sequence:
RefSeq Acc Id: XM_008760037   ⟹   XP_008758259
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01214,725,482 - 214,756,653 (+)NCBI
Sequence:
RefSeq Acc Id: XM_039101269   ⟹   XP_038957197
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21196,864,375 - 196,896,475 (+)NCBI
Protein Sequences
Protein RefSeqs XP_038957197 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAB53196 (Get FASTA)   NCBI Sequence Viewer  
  AAC53312 (Get FASTA)   NCBI Sequence Viewer  
  BAB17787 (Get FASTA)   NCBI Sequence Viewer  
  EDM12103 (Get FASTA)   NCBI Sequence Viewer  
  EDM12104 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: XP_001063331   ⟸   XM_001063331
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: XP_008758259   ⟸   XM_008760037
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_038957197   ⟸   XM_039101269
Protein Domains
CTCK   VWFC   VWFD


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)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
COP/CrCrl (MCW & UW)
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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)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
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

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:62001 AgrOrtholog
InterPro Cys_knot_C UniProtKB/TrEMBL
  Ser_inhib-like_sf UniProtKB/TrEMBL
  TIL_dom UniProtKB/TrEMBL
  Unchr_dom_Cys-rich UniProtKB/TrEMBL
  VWF_dom UniProtKB/TrEMBL
  VWF_type-D UniProtKB/TrEMBL
  WxxW_domain UniProtKB/TrEMBL
NCBI Gene 682837 ENTREZGENE
Pfam Mucin2_WxxW UniProtKB/TrEMBL
  PF08742 UniProtKB/TrEMBL
  TIL UniProtKB/TrEMBL
  VWD UniProtKB/TrEMBL
PhenoGen Muc5ac PhenoGen
PROSITE CTCK_1 UniProtKB/TrEMBL
  CTCK_2 UniProtKB/TrEMBL
  VWFC_1 UniProtKB/TrEMBL
  VWFC_2 UniProtKB/TrEMBL
  VWFD UniProtKB/TrEMBL
SMART SM00041 UniProtKB/TrEMBL
  SM00832 UniProtKB/TrEMBL
  VWC UniProtKB/TrEMBL
  VWC_out UniProtKB/TrEMBL
  VWD UniProtKB/TrEMBL
Superfamily-SCOP SSF57567 UniProtKB/TrEMBL
UniProt O35888_RAT UniProtKB/TrEMBL
  Q9ESP3_RAT UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-09-19 Muc5ac  mucin 5AC, oligomeric mucus/gel-forming  LOC682837  similar to mucin 5, subtype B, tracheobronchial  Data Merged 737654 APPROVED
2008-08-29 Muc5ac  mucin 5AC, oligomeric mucus/gel-forming  Muc5ac  mucin 5, subtypes A and C, tracheobronchial/gastric  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2006-11-20 LOC682837  similar to mucin 5, subtype B, tracheobronchial      Symbol and Name status set to provisional 70820 PROVISIONAL
2004-09-10 Muc5ac  mucin 5, subtypes A and C, tracheobronchial/gastric    mucin 5, subtypes A and C  Name updated 1299863 APPROVED
2002-06-10 Muc5ac  mucin 5, subtypes A and C      Name updated 70584 APPROVED

RGD Curation Notes
Note Type Note Reference