Rnf111 (ring finger protein 111) - Rat Genome Database

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Gene: Rnf111 (ring finger protein 111) Rattus norvegicus
Analyze
Symbol: Rnf111
Name: ring finger protein 111
RGD ID: 1310097
Description: Enables SMAD binding activity. Predicted to be involved in cellular protein metabolic process; positive regulation of transcription, DNA-templated; and positive regulation of transforming growth factor beta receptor signaling pathway. Predicted to act upstream of or within pattern specification process; positive regulation of protein ubiquitination; and protein polyubiquitination. Predicted to be located in cytosol and nucleoplasm. Predicted to be part of protein-containing complex. Predicted to be active in cytoplasm and nucleus. Orthologous to human RNF111 (ring finger protein 111); PARTICIPATES IN transforming growth factor-beta Smad dependent signaling pathway; INTERACTS WITH 2,4-dinitrotoluene; bisphenol A; cadmium dichloride.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: E3 ubiquitin-protein ligase Arkadia; LOC300813; ring finger 111
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2871,103,967 - 71,180,172 (-)NCBImRatBN7.2
mRatBN7.2 Ensembl871,103,973 - 71,145,070 (-)Ensembl
Rnor_6.0876,864,343 - 76,940,235 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl876,864,344 - 76,940,196 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0876,142,443 - 76,218,335 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4874,909,360 - 74,983,363 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.1874,928,412 - 75,002,379 (-)NCBI
Celera870,549,077 - 70,624,721 (+)NCBICelera
Cytogenetic Map8q24NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component
cytoplasm  (IBA,ISO)
cytosol  (IEA,ISO)
nucleoplasm  (ISO)
nucleus  (IBA,ISO)
PML body  (IEA)
protein-containing complex  (ISO)

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
References

References - curated
# Reference Title Reference Citation
1. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
2. Arkadia-Smad7-mediated positive regulation of TGF-beta signaling in a rat model of tubulointerstitial fibrosis. Liu FY, etal., Am J Nephrol. 2007;27(2):176-83. Epub 2007 Mar 7.
3. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
4. PID Annotation Import Pipeline Pipeline to import Pathway Interaction Database annotations from NCI into RGD
5. GOA pipeline RGD automated data pipeline
6. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:11298452   PMID:11555636   PMID:16601693   PMID:20386537   PMID:23086935   PMID:28350874   PMID:29286088  


Genomics

Comparative Map Data
Rnf111
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2871,103,967 - 71,180,172 (-)NCBImRatBN7.2
mRatBN7.2 Ensembl871,103,973 - 71,145,070 (-)Ensembl
Rnor_6.0876,864,343 - 76,940,235 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl876,864,344 - 76,940,196 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0876,142,443 - 76,218,335 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4874,909,360 - 74,983,363 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.1874,928,412 - 75,002,379 (-)NCBI
Celera870,549,077 - 70,624,721 (+)NCBICelera
Cytogenetic Map8q24NCBI
RNF111
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381558,987,663 - 59,097,419 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p13 Ensembl1558,865,175 - 59,097,419 (+)EnsemblGRCh38hg38GRCh38
GRCh371559,279,862 - 59,389,618 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361557,067,157 - 57,176,546 (+)NCBINCBI36hg18NCBI36
Build 341557,067,156 - 57,176,543NCBI
Celera1536,167,824 - 36,277,204 (+)NCBI
Cytogenetic Map15q22.1-q22.2NCBI
HuRef1536,102,268 - 36,211,882 (+)NCBIHuRef
CHM1_11559,397,853 - 59,507,605 (+)NCBICHM1_1
T2T-CHM13v2.01556,789,754 - 56,899,501 (+)NCBI
Rnf111
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39970,332,706 - 70,411,122 (-)NCBIGRCm39mm39
GRCm39 Ensembl970,332,706 - 70,411,007 (-)Ensembl
GRCm38970,425,424 - 70,503,840 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl970,425,424 - 70,503,725 (-)EnsemblGRCm38mm10GRCm38
MGSCv37970,273,236 - 70,351,532 (-)NCBIGRCm37mm9NCBIm37
MGSCv36970,224,593 - 70,302,889 (-)NCBImm8
Celera967,641,547 - 67,720,771 (-)NCBICelera
Cytogenetic Map9DNCBI
cM Map939.53NCBI
Rnf111
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495545015,587,270 - 15,624,576 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495545015,590,053 - 15,651,344 (-)NCBIChiLan1.0ChiLan1.0
RNF111
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.11556,212,580 - 56,374,485 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1556,265,379 - 56,374,484 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v01537,957,390 - 38,068,006 (+)NCBIMhudiblu_PPA_v0panPan3
RNF111
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.13023,934,156 - 24,027,529 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl3023,976,311 - 24,027,759 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha3023,907,947 - 24,003,371 (+)NCBI
ROS_Cfam_1.03024,102,577 - 24,198,087 (+)NCBI
ROS_Cfam_1.0 Ensembl3024,102,585 - 24,197,200 (+)Ensembl
UMICH_Zoey_3.13024,027,769 - 24,123,096 (+)NCBI
UNSW_CanFamBas_1.03024,110,994 - 24,206,320 (+)NCBI
UU_Cfam_GSD_1.03024,254,532 - 24,349,991 (+)NCBI
Rnf111
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024408640102,235,037 - 102,362,229 (+)NCBI
SpeTri2.0NW_00493647120,139,798 - 20,210,291 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
RNF111
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1112,961,412 - 113,059,543 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11112,961,466 - 113,059,606 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21124,961,877 - 125,013,992 (-)NCBISscrofa10.2Sscrofa10.2susScr3
RNF111
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12624,416,946 - 24,528,989 (-)NCBIChlSab1.1chlSab2
ChlSab1.1 Ensembl2624,416,093 - 24,528,862 (-)EnsemblChlSab1.1chlSab2
Vero_WHO_p1.0NW_023666048116,738,436 - 116,906,973 (+)NCBIVero_WHO_p1.0
Rnf111
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462478112,909,814 - 13,043,069 (-)EnsemblHetGla_female_1.0hetGla2
HetGla 1.0NW_00462478112,912,205 - 13,042,683 (-)NCBIHetGla_female_1.0hetGla2

Position Markers
RH143275  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2871,178,962 - 71,179,087 (+)MAPPERmRatBN7.2
Rnor_6.0876,939,031 - 76,939,155NCBIRnor6.0
Rnor_5.0876,143,518 - 76,143,642UniSTSRnor5.0
RGSC_v3.4874,982,198 - 74,982,322UniSTSRGSC3.4
Celera870,550,118 - 70,550,242UniSTS
Cytogenetic Map8q24UniSTS
BF389180  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2871,118,218 - 71,118,435 (+)MAPPERmRatBN7.2
Rnor_6.0876,878,589 - 76,878,805NCBIRnor6.0
Rnor_5.0876,203,868 - 76,204,084UniSTSRnor5.0
RGSC_v3.4874,923,605 - 74,923,821UniSTSRGSC3.4
Celera870,610,260 - 70,610,476UniSTS
Cytogenetic Map8q24UniSTS
BE112819  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2871,117,831 - 71,118,037 (+)MAPPERmRatBN7.2
Rnor_6.0876,878,202 - 76,878,407NCBIRnor6.0
Rnor_5.0876,204,266 - 76,204,471UniSTSRnor5.0
RGSC_v3.4874,923,218 - 74,923,423UniSTSRGSC3.4
Celera870,610,658 - 70,610,863UniSTS
RH 3.4 Map31291.4UniSTS
Cytogenetic Map8q24UniSTS


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1581557Eae16Experimental allergic encephalomyelitis QTL 163.8nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis incidence/prevalence measurement (CMO:0001046)88462195110921472Rat
631650Stl6Serum triglyceride level QTL 640.0019blood triglyceride amount (VT:0002644)plasma triglyceride level (CMO:0000548)810378157112202585Rat
631271Lecl1Lens clarity QTL 10.001lens clarity trait (VT:0001304)age of onset/diagnosis of cataract (CMO:0001584)81898416884531599Rat
731182Uae24Urinary albumin excretion QTL 246.4urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)81933115293965294Rat
2303564Gluco43Glucose level QTL 433blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)82613018771130187Rat
2303572Insul13Insulin level QTL 132blood insulin amount (VT:0001560)blood insulin level (CMO:0000349)82613018771130187Rat
1358892Kidm26Kidney mass QTL 263.69kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)82720571599103503Rat
1358896Bp262Blood pressure QTL 2622.89arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)82720571599103503Rat
1358907Cm40Cardiac mass QTL 401.89heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)82720571599103503Rat
1300146Rf17Renal function QTL 172.9renal blood flow trait (VT:2000006)absolute change in renal blood flow rate (CMO:0001168)82824291273242912Rat
8662823Vetf5Vascular elastic tissue fragility QTL 51.9artery integrity trait (VT:0010639)patent ductus arteriosus score (CMO:0002566)82824291299525068Rat
1549908Neudeg1Neurodegradation QTL 15.50nervous system integrity trait (VT:0010566)logarithm of the ratio of the lesioned side motor neuron count to contralateral side motor neuron count (CMO:0001986)83018886794457446Rat
2313046Bss78Bone structure and strength QTL 783.50.0001tibia strength trait (VT:1000284)tibia total energy absorbed before break (CMO:0001736)83084815482460899Rat
2313057Bss76Bone structure and strength QTL 7630.0001tibia size trait (VT:0100001)tibia midshaft cross-sectional area (CMO:0001717)83084815482460899Rat
2313067Bss77Bone structure and strength QTL 773.10.0001tibia size trait (VT:0100001)tibia midshaft endosteal cross-sectional area (CMO:0001716)83084815482460899Rat
2313088Bss75Bone structure and strength QTL 753.10.0001body length (VT:0001256)body length, nose to rump (CMO:0000079)83084815482460899Rat
1578755Pur5Proteinuria QTL 53.30.0001total urine protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)830848154101699754Rat
1578765Klgr1Kidney lesion grade QTL 13.30.0001kidney morphology trait (VT:0002135)organ lesion measurement (CMO:0000677)830848154101699754Rat
1578769Uae31Urinary albumin excretion QTL 313.30.001urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)830848154101699754Rat
2316950Scl66Serum cholesterol level QTL 664.1blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)830848259105647037Rat
1298065Scl16Serum cholesterol level QTL 163.8blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)83085640475856404Rat
1582222Epfw2Epididymal fat weight QTL 23.20.0005epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)83173772976737729Rat
61358Bp39Blood pressure QTL 392arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)83555193880551938Rat
61464Niddm11Non-insulin dependent diabetes mellitus QTL 113.10.001blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)83558203280582032Rat
1331838Niddm61Non-insulin dependent diabetes mellitus QTL 613.530.0004blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)83646953599083736Rat
737824Hcar10Hepatocarcinoma resistance QTL 102.9liver integrity trait (VT:0010547)liver tumorous lesion number (CMO:0001068)84071306682925667Rat
1358906Bp253Blood pressure QTL 25340.0004arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)84071306693965294Rat
1554321Bmd3Bone mineral density QTL 37.90.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)840952565123900184Rat
1331769Rf39Renal function QTL 393.871urine output (VT:0003620)timed urine volume (CMO:0000260)84186687675097878Rat
1298079Activ2Activity QTL 29.50.000001voluntary movement trait (VT:0003491)rearing measurement (CMO:0001515)84186687686866876Rat
70161Bp62Blood pressure QTL 622.90.001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)84269268490165460Rat
12879882Am8Aortic mass QTL 80.001aorta mass (VT:0002845)aorta weight to aorta length to body weight ratio (CMO:0002722)84329616998968765Rat
12879878Bw183Body weight QTL 1830.001body mass (VT:0001259)body weight (CMO:0000012)84329616998968765Rat
12879879Cm99Cardiac mass QTL 990.001heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)84329616998968765Rat
12879880Cm100Cardiac mass QTL 1000.001heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)84329616998968765Rat
12879881Cm101Cardiac mass QTL 1010.001heart right ventricle mass (VT:0007033)heart right ventricle weight to body weight ratio (CMO:0000914)84329616998968765Rat
12879883Kidm65Kidney mass QTL 650.001kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)84329616998968765Rat
70197BpQTLcluster8Blood pressure QTL cluster 83.482arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)846531639119088624Rat
70197BpQTLcluster8Blood pressure QTL cluster 83.482arterial blood pressure trait (VT:2000000)pulse pressure (CMO:0000292)846531639119088624Rat
70197BpQTLcluster8Blood pressure QTL cluster 83.482arterial blood pressure trait (VT:2000000)absolute change in systolic blood pressure (CMO:0000607)846531639119088624Rat
70197BpQTLcluster8Blood pressure QTL cluster 83.482arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)846531639119088624Rat
1331837Bw23Body weight QTL 234.190.00007body mass (VT:0001259)body weight (CMO:0000012)84653172299083736Rat
2303570Gluco48Glucose level QTL 482blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)84980583194805831Rat
2313086Bss60Bone structure and strength QTL 604.10.0001tibia length (VT:0004357)tibia length (CMO:0000450)85009524982460899Rat
4889938Bss89Bone structure and strength QTL 893.8tibia size trait (VT:0100001)tibia cortical bone volume (CMO:0001725)85009524982460899Rat
5684973Bss100Bone structure and strength QTL 1004.7tibia area (VT:1000281)tibia area measurement (CMO:0001382)85009524982460899Rat
1358912Bw51Body weight QTL 512.95body mass (VT:0001259)body weight (CMO:0000012)851351728107062046Rat
10402857Bp380Blood pressure QTL 3800.95arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)85396876598968765Rat
2301402Bp316Blood pressure QTL 3160.005arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)85396876598968765Rat
2293697Bmd39Bone mineral density QTL 39femur strength trait (VT:0010010)femur total energy absorbed before break (CMO:0001677)85404374498968765Rat
1582243Bw66Body weight QTL 663.40.0048body mass (VT:0001259)body weight (CMO:0000012)85423764485365202Rat
1582254Kidm31Kidney mass QTL 313kidney mass (VT:0002707)both kidneys wet weight (CMO:0000085)85423764485365202Rat
631664Hcar3Hepatocarcinoma resistance QTL 32.90.0005liver integrity trait (VT:0010547)volume of individual liver tumorous lesion (CMO:0001078)85423764499103503Rat
1300177Cm2Cardiac mass QTL 23.65heart mass (VT:0007028)heart weight (CMO:0000017)854259986100382532Rat
2303171Bp331Blood pressure QTL 3315.570.005arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)861290298119084929Rat
631653Bp125Blood pressure QTL 1253.3arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)866142385111142385Rat
631210Bw3Body weight QTL35.9mesenteric fat pad mass (VT:0010427)mesenteric fat pad weight to body weight ratio (CMO:0000654)869349194112783834Rat
1300171Bp184Blood pressure QTL 1843.66arterial blood pressure trait (VT:2000000)blood pressure time series experimental set point of the baroreceptor response (CMO:0002593)870513503118219066Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:244
Count of miRNA genes:138
Interacting mature miRNAs:193
Transcripts:ENSRNOT00000017918
Prediction methods:Miranda, 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 3 29 33 17 19 17 1 1 74 35 38 11 1
Low 14 24 24 24 7 10 3 7
Below cutoff

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_001106836 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006243372 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006243373 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006243374 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006243376 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006243377 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008766243 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008766244 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039081131 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039081132 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039081133 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039081135 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039081136 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039081137 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039081138 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide CH474041 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JACYVU010000199 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSRNOT00000082709   ⟹   ENSRNOP00000069573
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl876,865,688 - 76,940,094 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000084313   ⟹   ENSRNOP00000069810
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl871,103,973 - 71,145,070 (-)Ensembl
Rnor_6.0 Ensembl876,864,344 - 76,940,196 (-)Ensembl
RefSeq Acc Id: NM_001106836   ⟹   NP_001100306
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2871,103,973 - 71,180,128 (-)NCBI
Rnor_6.0876,864,344 - 76,940,196 (-)NCBI
Rnor_5.0876,142,443 - 76,218,335 (+)NCBI
RGSC_v3.4874,909,360 - 74,983,363 (-)RGD
Celera870,549,077 - 70,624,721 (+)RGD
Sequence:
RefSeq Acc Id: XM_006243372   ⟹   XP_006243434
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2871,103,967 - 71,179,763 (-)NCBI
Rnor_6.0876,864,343 - 76,939,795 (-)NCBI
Rnor_5.0876,142,443 - 76,218,335 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006243373   ⟹   XP_006243435
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2871,105,410 - 71,179,762 (-)NCBI
Rnor_6.0876,864,343 - 76,939,794 (-)NCBI
Rnor_5.0876,142,443 - 76,218,335 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006243374   ⟹   XP_006243436
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2871,105,410 - 71,179,763 (-)NCBI
Rnor_6.0876,865,781 - 76,939,795 (-)NCBI
Rnor_5.0876,142,443 - 76,218,335 (+)NCBI
Sequence:
RefSeq Acc Id: XM_039081131   ⟹   XP_038937059
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2871,103,967 - 71,179,764 (-)NCBI
RefSeq Acc Id: XM_039081132   ⟹   XP_038937060
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2871,103,967 - 71,179,764 (-)NCBI
RefSeq Acc Id: XM_039081133   ⟹   XP_038937061
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2871,103,967 - 71,179,763 (-)NCBI
RefSeq Acc Id: XM_039081135   ⟹   XP_038937063
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2871,103,967 - 71,180,172 (-)NCBI
RefSeq Acc Id: XM_039081136   ⟹   XP_038937064
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2871,103,967 - 71,179,555 (-)NCBI
RefSeq Acc Id: XM_039081137   ⟹   XP_038937065
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2871,103,967 - 71,180,172 (-)NCBI
RefSeq Acc Id: XM_039081138   ⟹   XP_038937066
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2871,103,967 - 71,175,108 (-)NCBI
Reference Sequences
RefSeq Acc Id: NP_001100306   ⟸   NM_001106836
- UniProtKB: D4A9T1 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006243434   ⟸   XM_006243372
- Peptide Label: isoform X4
- Sequence:
RefSeq Acc Id: XP_006243435   ⟸   XM_006243373
- Peptide Label: isoform X5
- Sequence:
RefSeq Acc Id: XP_006243436   ⟸   XM_006243374
- Peptide Label: isoform X6
- Sequence:
RefSeq Acc Id: ENSRNOP00000069573   ⟸   ENSRNOT00000082709
RefSeq Acc Id: ENSRNOP00000069810   ⟸   ENSRNOT00000084313
RefSeq Acc Id: XP_038937065   ⟸   XM_039081137
- Peptide Label: isoform X7
RefSeq Acc Id: XP_038937063   ⟸   XM_039081135
- Peptide Label: isoform X7
RefSeq Acc Id: XP_038937060   ⟸   XM_039081132
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038937059   ⟸   XM_039081131
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038937061   ⟸   XM_039081133
- Peptide Label: isoform X3
RefSeq Acc Id: XP_038937064   ⟸   XM_039081136
- Peptide Label: isoform X7
RefSeq Acc Id: XP_038937066   ⟸   XM_039081138
- Peptide Label: isoform X7

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D4A9T1-F1-model_v2 AlphaFold D4A9T1 1-987 view protein structure

Transcriptome

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

Promoters
RGD ID:13696106
Promoter ID:EPDNEW_R6629
Type:initiation region
Name:Rnf111_1
Description:ring finger protein 111
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_6.0876,940,191 - 76,940,251EPDNEW

Strain Variation

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


Assembly: Rnor_5.0

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
8 76200304 76200305 C A snv IS-Tlk/Kyo (KyushuU), IS/Kyo (KyushuU)


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1310097 AgrOrtholog
BioCyc Gene G2FUF-29930 BioCyc
Ensembl Genes ENSRNOG00000060750 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000069810 ENTREZGENE
  ENSRNOP00000069810.2 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000084313 ENTREZGENE
  ENSRNOT00000084313.2 UniProtKB/TrEMBL
Gene3D-CATH 3.30.40.10 UniProtKB/TrEMBL
InterPro RNF111_N UniProtKB/TrEMBL
  Znf_RING UniProtKB/TrEMBL
  Znf_RING/FYVE/PHD UniProtKB/TrEMBL
KEGG Report rno:300813 UniProtKB/TrEMBL
NCBI Gene 300813 ENTREZGENE
Pfam RNF111_N UniProtKB/TrEMBL
  zf-RING_2 UniProtKB/TrEMBL
PhenoGen Rnf111 PhenoGen
PROSITE ZF_RING_2 UniProtKB/TrEMBL
SMART RING UniProtKB/TrEMBL
UniProt D4A9T1 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-11-20 Rnf111  ring finger protein 111  Rnf111  ring finger 111  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-03-07 Rnf111  ring finger 111  Rnf111_predicted  ring finger protein 111 (predicted)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2006-03-22 Rcn1_predicted  ring finger protein 111 (predicted)  Rnf111_predicted  ring finger 111 (predicted)  Name updated 1299863 APPROVED
2005-01-12 Rnf111_predicted  ring finger 111 (predicted)      Symbol and Name status set to approved 70820 APPROVED