Rnft1 (ring finger protein, transmembrane 1) - Rat Genome Database

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Gene: Rnft1 (ring finger protein, transmembrane 1) Mus musculus
Analyze
Symbol: Rnft1
Name: ring finger protein, transmembrane 1
RGD ID: 1557343
MGI Page MGI
Description: Predicted to enable ubiquitin binding activity and ubiquitin protein ligase activity. Predicted to be involved in positive regulation of ERAD pathway and protein autoubiquitination. Predicted to be located in early endosome membrane. Predicted to be active in endoplasmic reticulum. Orthologous to human RNFT1 (ring finger protein, transmembrane 1).
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: 0610013E23Rik; AV007605; E3 ubiquitin-protein ligase RNFT1; RING finger and transmembrane domain-containing protein 1; RP23-467J12.1
RGD Orthologs
Human
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCm39 - Mouse Genome Assembly GRCm39
Position:
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391186,375,483 - 86,389,833 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1186,375,483 - 86,389,851 (+)EnsemblGRCm39 Ensembl
GRCm381186,484,657 - 86,499,007 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1186,484,657 - 86,499,025 (+)EnsemblGRCm38mm10GRCm38
MGSCv371186,298,159 - 86,312,509 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361186,300,852 - 86,315,202 (+)NCBIMGSCv36mm8
Celera1196,100,673 - 96,115,091 (+)NCBICelera
Cytogenetic Map11CNCBI
cM Map1151.82NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

Molecular Function

Phenotype Annotations     Click to see Annotation Detail View

Mammalian Phenotype
References

References - curated
# Reference Title Reference Citation
1. Functional annotation of a full-length mouse cDNA collection. Kawai J, etal., Nature. 2001 Feb 8;409(6821):685-90.
2. MGDs mouse GO annotations MGD data from the GO Consortium
3. Analysis of the mouse transcriptome based on functional annotation of 60,770 full-length cDNAs. Okazaki Y, etal., Nature. 2002 Dec 5;420(6915):563-73.
4. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
5. Database resources of the National Center for Biotechnology Information. Wheeler DL, etal., Nucleic Acids Res 2001 Jan 1;29(1):11-6.
Additional References at PubMed
PMID:8889548   PMID:10349636   PMID:11042159   PMID:11076861   PMID:12477932   PMID:14610273   PMID:16141072   PMID:16141073   PMID:21873635   PMID:38355793  


Genomics

Comparative Map Data
Rnft1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391186,375,483 - 86,389,833 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1186,375,483 - 86,389,851 (+)EnsemblGRCm39 Ensembl
GRCm381186,484,657 - 86,499,007 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1186,484,657 - 86,499,025 (+)EnsemblGRCm38mm10GRCm38
MGSCv371186,298,159 - 86,312,509 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361186,300,852 - 86,315,202 (+)NCBIMGSCv36mm8
Celera1196,100,673 - 96,115,091 (+)NCBICelera
Cytogenetic Map11CNCBI
cM Map1151.82NCBI
RNFT1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381759,952,240 - 59,964,740 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1759,952,240 - 59,964,761 (-)EnsemblGRCh38hg38GRCh38
GRCh371758,029,601 - 58,042,101 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361755,384,505 - 55,396,899 (-)NCBINCBI36Build 36hg18NCBI36
Celera1754,493,237 - 54,505,631 (-)NCBICelera
Cytogenetic Map17q23.1NCBI
HuRef1753,402,180 - 53,414,575 (-)NCBIHuRef
CHM1_11758,093,740 - 58,106,136 (-)NCBICHM1_1
T2T-CHM13v2.01760,820,980 - 60,833,476 (-)NCBIT2T-CHM13v2.0
Rnft1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81071,807,403 - 71,821,132 (+)NCBIGRCr8
mRatBN7.21071,310,052 - 71,322,507 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1071,310,104 - 71,323,778 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1075,929,989 - 75,941,112 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01075,434,797 - 75,445,920 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01070,899,410 - 70,910,533 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01073,807,455 - 73,821,178 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1073,809,157 - 73,817,982 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01076,278,401 - 76,292,132 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41076,640,223 - 76,651,484 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera1070,231,791 - 70,245,501 (+)NCBICelera
Cytogenetic Map10q26NCBI
Rnft1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554513,164,845 - 3,178,991 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554513,165,316 - 3,178,991 (+)NCBIChiLan1.0ChiLan1.0
RNFT1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21976,113,925 - 76,126,370 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11780,924,130 - 80,937,015 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01754,016,689 - 54,029,100 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11758,858,294 - 58,869,908 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1758,858,416 - 58,869,908 (-)Ensemblpanpan1.1panPan2
RNFT1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1934,430,119 - 34,442,760 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl934,335,554 - 34,442,374 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha933,662,099 - 33,674,787 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0935,241,103 - 35,253,845 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl935,241,110 - 35,253,442 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1934,024,780 - 34,037,509 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0934,309,749 - 34,322,468 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0934,395,977 - 34,408,708 (-)NCBIUU_Cfam_GSD_1.0
Rnft1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440560233,635,983 - 33,648,362 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049364903,426,762 - 3,438,900 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049364903,426,692 - 3,439,179 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
RNFT1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1236,162,444 - 36,174,851 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11236,162,438 - 36,175,135 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21237,534,630 - 37,542,161 (+)NCBISscrofa10.2Sscrofa10.2susScr3
RNFT1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11633,483,167 - 33,496,608 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1633,483,194 - 33,497,325 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_0236660774,268,841 - 4,282,313 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Rnft1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046248711,707,509 - 1,721,078 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046248711,707,570 - 1,721,026 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Rnft1
350 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:1137
Count of miRNA genes:650
Interacting mature miRNAs:799
Transcripts:ENSMUST00000020827, ENSMUST00000125675, ENSMUST00000131246
Prediction methods:Miranda, Rnahybrid
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.


QTLs in Region (GRCm39)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
27226783Tibl5_mtibia length 5, 5 week (mouse)1168190826101890826Mouse
1300628Lgth6_mbody length 6 (mouse)Not determined1166733420100733652Mouse
4141367Inf1_macute ozone induced inflammation (mouse)Not determined44630038113058009Mouse
1558812Rafar_mretinoic acid induced forelimb autopod reduction (mouse)Not determined1170691198104691366Mouse
1300766Skull16_mskull morphology 16 (mouse)Not determined1181574481115574636Mouse
1301404Sbmd4_mspinal bone mineral density 4 (mouse)Not determined1172019649106019734Mouse
4142121Tmc1m2_mTmc1 modifier 2 (mouse)Not determined1156864027114157957Mouse
27226758Femd3_mfemur midshaft diameter 3, 5 week (mouse)1180890826101890826Mouse
14747003Mancz9_mmandible centroid size 9 (mouse)1185844911119844911Mouse
1301640Lore4_mloss of righting induced by ethanol 4 (mouse)Not determined1179156009107616472Mouse
10412288Carg4_mCandida albicans resistance gene 4 (mouse)Not determined1181810267115810267Mouse
1357878Mastr_mmodifier of astrocytoma (mouse)Not determined114570858189818733Mouse
1301681Sle13_msystematic lupus erythematosus susceptibility 13 (mouse)Not determined1170691198104691366Mouse
1300784Prdt3_mprion disease incubation time 3 (mouse)Not determined1166733420100733652Mouse
4141339Nilac2_mnicotine induced locomotor activity 2 (mouse)Not determined1170691198104691366Mouse
10413882Moe1_mmodifier of epilepsy 1 (mouse)1177770978111771099Mouse
11039501Ltpr6a_mLeishmania tropica response 6a (mouse)116483033698830473Mouse
13208559Wght10_mweight 10 (mouse)11395000088890826Mouse
13524840Ppiq9a_mprepulse inhibition QTL 9a (mouse)115249438586494385Mouse
11039502Ltpr6b_mLeishmania tropica response 6b (mouse)116483033698830473Mouse
13208558Lgth12_mbody length 12 (mouse)11395000094890826Mouse
10045616Heal25_mwound healing/regeneration 25 (mouse)Not determined1177437183111437322Mouse
1300664Etohcta9_methanol conditioned taste aversion 9 (mouse)Not determined115775466091754758Mouse
1301310Tmevd5_mTheiler's murine encephalomyelitis virus induced demyelinating disease susceptibility 5 (mouse)Not determined1172726125106726289Mouse
1300924Ity2_mimmunity to S. typhimurium 2 (mouse)Not determined15850803087695238Mouse
11039515Ltpr6_mLeishmania tropica response 6 (mouse)116483033698830473Mouse
4142348Pstc2_mperiosteal circumference 2 (mouse)Not determined1172818615106818733Mouse
1300774Pgia7_mproteoglycan induced arthritis 7 (mouse)Not determined115339058887390737Mouse
1301414Heal10_mwound healing/regeneration 10 (mouse)Not determined1177437183111437322Mouse
15092049Wsigrme3_mweek six growth rate, maternal effect 3 (mouse)118487732496629512Mouse
1300651Pcyts3_mplasmacytoma susceptibility 3 (mouse)Not determined1170691198104691366Mouse
1301546Pcir2_mperiosteal circumference 2 (mouse)Not determined1166733420100733652Mouse
1300905Scc6_mcolon tumor susceptibility 6 (mouse)Not determined11688027789019734Mouse
1300649Crhq1_mcompensatory renal hypertrophy QTL 1 (mouse)Not determined1181574481115574636Mouse
14746970Manh71_mmandible shape 71 (mouse)1179416257113416257Mouse
15092057Lgrme3_mlate growth rate, maternal effect 3 (mouse)118487732496629512Mouse
10043865T2dm5sa_mtype 2 diabetes mellitus 5 in SMXA RI mice (mouse)Not determined1179813759104502698Mouse
39128214Lwq20_mliver weight QTL 20 (mouse)1112268637118022724Mouse
10043866Adip19_madiposity 19 (mouse)Not determined1172818615106818733Mouse
1301072Eae22_mexperimental allergic encephalomyelitis 22 (mouse)Not determined1182377698116377820Mouse
10412246Dfs2_mdental fluorosis suseptibility 2 (mouse)Not determined112180736495881231Mouse
11038695Par8_mpulmonary adenoma resistance 8 (mouse)1177063779111063918Mouse
1357766Si5lq6_mserum IGFBP-5 level QTL 6 (mouse)Not determined1166733420100733652Mouse
1301319Dautb4_mdopamine uptake transporter binding 4 (mouse)Not determined116215600596156153Mouse
1301833Tbbmd5_mtotal body bone mineral density 5 (mouse)Not determined1166733420100733652Mouse
4141012Femwf6_mfemur work to failure 6 (mouse)Not determined66733420100733652Mouse
1301987Pid3_mprior incubation determinant 3 (mouse)Not determined116168682088699728Mouse
27226730Tibmd1_mtibia midshaft diameter 1, 5 week (mouse)1162590826109390826Mouse
4141894Nidd6k_mNidd6 on KK-A (mouse)Not determined1912420496897826Mouse
10044004Stzid3_mstreptozotocin induced diabetes susceptibility 3 (mouse)Not determined116331940794063918Mouse
1302124Eae7_msusceptibility to experimental allergic encephalomyelitis 7 (mouse)Not determined117757387399377820Mouse

Markers in Region
AA959758  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm381186,499,174 - 86,499,258UniSTSGRCm38
MGSCv371186,312,676 - 86,312,760UniSTSGRCm37
Celera1196,115,258 - 96,115,342UniSTS
Cytogenetic Map11CUniSTS
Whitehead/MRC_RH111114.75UniSTS
AV007605  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm381186,496,184 - 86,496,294UniSTSGRCm38
MGSCv371186,309,686 - 86,309,796UniSTSGRCm37
Celera1196,112,066 - 96,112,176UniSTS
Cytogenetic Map11CUniSTS
Whitehead/MRC_RH111110.65UniSTS
RH139016  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm381186,484,858 - 86,485,006UniSTSGRCm38
MGSCv371186,298,360 - 86,298,508UniSTSGRCm37
Celera1196,100,875 - 96,101,023UniSTS
Cytogenetic Map11CUniSTS


Expression

RNA-SEQ Expression


Sequence


Ensembl Acc Id: ENSMUST00000020827   ⟹   ENSMUSP00000020827
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1186,375,483 - 86,389,851 (+)Ensembl
GRCm38.p6 Ensembl1186,484,657 - 86,499,025 (+)Ensembl
Ensembl Acc Id: ENSMUST00000125675
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1186,375,511 - 86,381,337 (+)Ensembl
GRCm38.p6 Ensembl1186,484,685 - 86,490,511 (+)Ensembl
Ensembl Acc Id: ENSMUST00000131246
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1186,375,556 - 86,376,931 (+)Ensembl
GRCm38.p6 Ensembl1186,484,730 - 86,486,105 (+)Ensembl
RefSeq Acc Id: NM_029788   ⟹   NP_084064
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391186,375,483 - 86,389,833 (+)NCBI
GRCm381186,484,657 - 86,499,007 (+)ENTREZGENE
MGSCv371186,298,159 - 86,312,509 (+)RGD
Celera1196,100,673 - 96,115,091 (+)RGD
cM Map11 ENTREZGENE
Sequence:
RefSeq Acc Id: NP_084064   ⟸   NM_029788
- UniProtKB: Q3U649 (UniProtKB/Swiss-Prot),   Q80X62 (UniProtKB/Swiss-Prot),   Q9DCN7 (UniProtKB/Swiss-Prot)
- Sequence:
Ensembl Acc Id: ENSMUSP00000020827   ⟸   ENSMUST00000020827

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q9DCN7-F1-model_v2 AlphaFold Q9DCN7 1-395 view protein structure

Promoters
RGD ID:6820133
Promoter ID:MM_KWN:9013
Type:CpG-Island
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:3T3L1_Day0,   3T3L1_Day1,   3T3L1_Day2,   3T3L1_Day3,   3T3L1_Day4,   3T3L1_Day6,   BoneMarrow_0Hour,   BoneMarrow_2Hour,   BoneMarrow_4Hour,   Brain,   ES_Cell,   Kidney,   Liver,   Lung,   MEF_B4,   MEF_B6,   Spleen
Transcripts:OTTMUST00000002393,   OTTMUST00000002394,   OTTMUST00000002395,   UC007KSM.1
Position:
Mouse AssemblyChrPosition (strand)Source
MGSCv361186,297,671 - 86,298,757 (+)MPROMDB
RGD ID:8676014
Promoter ID:EPDNEW_M16038
Type:initiation region
Name:Rnft1_1
Description:Mus musculus ring finger protein, transmembrane 1 , mRNA.
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm381186,484,689 - 86,484,749EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene MGI:1924142 AgrOrtholog
Ensembl Genes ENSMUSG00000020521 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSMUST00000020827 ENTREZGENE
  ENSMUST00000020827.7 UniProtKB/Swiss-Prot
Gene3D-CATH 3.30.40.10 UniProtKB/Swiss-Prot
InterPro RNFT1/2 UniProtKB/Swiss-Prot
  Znf_RING UniProtKB/Swiss-Prot
  Znf_RING/FYVE/PHD UniProtKB/Swiss-Prot
  Znf_RING_CS UniProtKB/Swiss-Prot
KEGG Report mmu:76892 UniProtKB/Swiss-Prot
MGD MGI:1924142 ENTREZGENE
NCBI Gene 76892 ENTREZGENE
PANTHER E3 UBIQUITIN-PROTEIN LIGASE RNFT1 UniProtKB/Swiss-Prot
  PTHR15860 UniProtKB/Swiss-Prot
Pfam zf-RING_2 UniProtKB/Swiss-Prot
PhenoGen Rnft1 PhenoGen
PROSITE ZF_RING_1 UniProtKB/Swiss-Prot
  ZF_RING_2 UniProtKB/Swiss-Prot
SMART RING UniProtKB/Swiss-Prot
Superfamily-SCOP RING/U-box UniProtKB/Swiss-Prot
UniProt Q3U649 ENTREZGENE
  Q80X62 ENTREZGENE
  Q9DCN7 ENTREZGENE, UniProtKB/Swiss-Prot
UniProt Secondary Q3U649 UniProtKB/Swiss-Prot
  Q80X62 UniProtKB/Swiss-Prot