Rfpl4b (ret finger protein-like 4B) - Rat Genome Database

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Gene: Rfpl4b (ret finger protein-like 4B) Mus musculus
Analyze
Symbol: Rfpl4b
Name: ret finger protein-like 4B
RGD ID: 1622999
MGI Page MGI
Description: Predicted to enable ubiquitin protein ligase activity. Predicted to be involved in innate immune response; positive regulation of type I interferon-mediated signaling pathway; and protein monoubiquitination. Orthologous to human RFPL4B (ret finger protein like 4B).
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: 100040915; Gm3037; Gm62; predicted gene 3037; ret finger protein-like 4 pseudogene
RGD Orthologs
Human
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Alliance Genes
More Info more info ...
Latest Assembly: GRCm39 - Mouse Genome Assembly GRCm39
Position:
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391038,696,537 - 38,697,775 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1038,696,537 - 38,697,775 (-)EnsemblGRCm39 Ensembl
GRCm381038,820,541 - 38,821,779 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1038,820,541 - 38,821,779 (-)EnsemblGRCm38mm10GRCm38
MGSCv371038,540,347 - 38,541,585 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361038,510,219 - 38,510,821 (-)NCBIMGSCv36mm8
Celera1039,703,019 - 39,704,257 (-)NCBICelera
Cytogenetic Map10B1NCBI
cM Map1019.98NCBI
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

Biological Process

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
Additional References at PubMed
PMID:10922068   PMID:21267068   PMID:21873635  


Genomics

Comparative Map Data
Rfpl4b
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391038,696,537 - 38,697,775 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1038,696,537 - 38,697,775 (-)EnsemblGRCm39 Ensembl
GRCm381038,820,541 - 38,821,779 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1038,820,541 - 38,821,779 (-)EnsemblGRCm38mm10GRCm38
MGSCv371038,540,347 - 38,541,585 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361038,510,219 - 38,510,821 (-)NCBIMGSCv36mm8
Celera1039,703,019 - 39,704,257 (-)NCBICelera
Cytogenetic Map10B1NCBI
cM Map1019.98NCBI
RFPL4B
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh386112,347,330 - 112,351,294 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl6112,347,330 - 112,351,294 (+)EnsemblGRCh38hg38GRCh38
GRCh376112,668,532 - 112,672,496 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 366112,775,225 - 112,779,191 (+)NCBINCBI36Build 36hg18NCBI36
Celera6113,409,815 - 113,413,781 (+)NCBICelera
Cytogenetic Map6q21NCBI
HuRef6110,243,420 - 110,247,386 (+)NCBIHuRef
CHM1_16112,930,835 - 112,934,801 (+)NCBICHM1_1
T2T-CHM13v2.06113,493,205 - 113,534,708 (+)NCBIT2T-CHM13v2.0
Rfpl4b
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr82043,811,877 - 43,813,084 (-)NCBIGRCr8
mRatBN7.22042,257,260 - 42,258,155 (-)NCBImRatBN7.2mRatBN7.2
Rnor_6.02043,929,386 - 43,955,762 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.02045,654,732 - 45,680,990 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.42042,920,329 - 42,965,900 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera2042,975,339 - 43,001,696 (-)NCBICelera
Cytogenetic Map20q12NCBI
Rfpl4b
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0NW_0049555264,242,108 - 4,253,095 (-)NCBIChiLan1.0ChiLan1.0
RFPL4B
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v25132,361,812 - 132,368,193 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan16130,249,929 - 130,256,311 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v06109,950,749 - 110,162,597 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.16114,233,687 - 114,237,653 (+)NCBIpanpan1.1PanPan1.1panPan2
RFPL4B
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11268,753,605 - 68,757,164 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1268,572,191 - 68,575,750 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.01269,635,677 - 69,639,246 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1269,638,072 - 69,638,884 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.11268,995,044 - 68,998,611 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01268,832,432 - 68,835,998 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01269,159,891 - 69,163,458 (+)NCBIUU_Cfam_GSD_1.0
Rfpl4b
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024404946103,825,481 - 103,827,333 (+)NCBIHiC_Itri_2
SpeTri2.0NW_0049366791,057,682 - 1,058,497 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
RFPL4B
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl178,312,248 - 78,313,060 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1178,312,248 - 78,313,153 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2188,133,049 - 88,134,492 (+)NCBISscrofa10.2Sscrofa10.2susScr3
RFPL4B
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11361,495,405 - 61,500,523 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1361,496,274 - 61,497,068 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366604033,839,134 - 33,843,403 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0

Variants

.
Variants in Rfpl4b
51 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:65
Count of miRNA genes:64
Interacting mature miRNAs:65
Transcripts:ENSMUST00000179279
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
13208561Wght8_mweight 8 (mouse)10495000043875996Mouse
1302092Ath11_matherosclerosis 11 (mouse)Not determined10615194558693521Mouse
1357740Obsty3_mobesity 3 (mouse)Not determined108235478116190980Mouse
1558865Lith21_mlithogenic gene 21 (mouse)Not determined10852500342525126Mouse
1301448Pas11_mpulmonary adenoma susceptibility 11 (mouse)Not determined10989026443890391Mouse
1301129Alcp15_malcohol preference locus 15 (mouse)Not determined10989026443890391Mouse
1302133Alcp16_malcohol preference locus 16 (mouse)Not determined10989026443890391Mouse
1301386Sysbp1_msystolic blood pressure 1 (mouse)Not determined101010826587401095Mouse
1357825Kidpq2_mkidney weight percentage QTL 2 (mouse)Not determined101270405184079784Mouse
1357656Hrtq3_mheart weight QTL 3 (mouse)Not determined101270405184079784Mouse
1357864Scfpq1_msubcutaneous fat pad percentage QTL 1 (mouse)Not determined101270405184079784Mouse
39128215Lwq17_mliver weight QTL 17 (mouse)101270405184079784Mouse
4141956Egq7_mearly growth QTL 7 (mouse)Not determined1270405184079784Mouse
4141943W6q6_mweight 6 weeks QTL 6 (mouse)Not determined1270405184079784Mouse
4142272W10q5_mweight 10 weeks QTL 5 (mouse)Not determined1270405184079784Mouse
4142380W3q11_mweight 3 weeks QTL 11 (mouse)Not determined1270405184079784Mouse
1302067Scc9_mcolon tumor susceptibility 9 (mouse)Not determined1018259333125575232Mouse
27226772Tibl13_mtibia length 13, 10 week (mouse)1018875748129635869Mouse
10755518Chol16_mcholesterol 16 (mouse)101891504352915043Mouse
1302160Mbis2_mMycobacterium bovis-induced systemic lupus erythematosus 2 (mouse)Not determined102028318556031223Mouse
1558757Eae34_mexperimental allergic encephalomyelitis susceptibility 34 (mouse)Not determined1021408154114217230Mouse
1301003Lmblgq4_mlimb length QTL 4 (mouse)Not determined102159119268091639Mouse
26884394Humsd3_mhumerus midshaft diameter 3, 10 week (mouse)102237589951076096Mouse
26884403Cvht8_mcranial vault height 8, 16 week (mouse)102287589991035862Mouse
26884426Cvht1_mcranial vault height 1, 5 week (mouse)1024675898121035905Mouse
4142209Psrs1_mpsoriasis susceptibility 1 (mouse)Not determined102689026446720483Mouse
1300898Cfid_mcystic fibrosis intestinal distress (mouse)Not determined102972040363720483Mouse
10045632Heal16_mwound healing/regeneration 16 (mouse)Not determined103097449964974630Mouse
1357558Bmch4_mbone mechanical trait 4 (mouse)Not determined103157713665577284Mouse
27095920Pglq9_mpelvic girdle length QTL 9, 10 week (mouse)103377599670835830Mouse


Expression


Sequence


Reference Sequences
RefSeq Acc Id: ENSMUST00000179279   ⟹   ENSMUSP00000137446
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1038,696,537 - 38,697,775 (-)Ensembl
GRCm38.p6 Ensembl1038,820,541 - 38,821,779 (-)Ensembl
RefSeq Acc Id: NM_001177783   ⟹   NP_001171254
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391038,696,537 - 38,697,775 (-)NCBI
GRCm381038,820,541 - 38,821,779 (-)NCBI
MGSCv371038,540,347 - 38,541,585 (-)RGD
Celera1039,703,019 - 39,704,257 (-)RGD
cM Map10 ENTREZGENE
Sequence:
Protein Sequences
Protein RefSeqs NP_001171254 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein EDL04905 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSMUSP00000137446
  ENSMUSP00000137446.2
Reference Protein Sequences
RefSeq Acc Id: NP_001171254   ⟸   NM_001177783
- UniProtKB: J3QPR6 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSMUSP00000137446   ⟸   ENSMUST00000179279
Protein Domains
RING-type

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-J3QPR6-F1-model_v2 AlphaFold J3QPR6 1-266 view protein structure


Additional Information

Database Acc Id Source(s)
AGR Gene MGI:2684908 AgrOrtholog
Ensembl Genes ENSMUSG00000094311 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSMUST00000179279 ENTREZGENE
  ENSMUST00000179279.2 UniProtKB/TrEMBL
Gene3D-CATH 2.60.120.920 UniProtKB/TrEMBL
  3.30.40.10 UniProtKB/TrEMBL
InterPro B30.2/SPRY_sf UniProtKB/TrEMBL
  ConA-like_dom UniProtKB/TrEMBL
  Znf_RING UniProtKB/TrEMBL
  Znf_RING/FYVE/PHD UniProtKB/TrEMBL
KEGG Report mmu:215919 UniProtKB/TrEMBL
MGD MGI:2684908 ENTREZGENE
NCBI Gene 215919 ENTREZGENE
PANTHER E3 UBIQUITIN-PROTEIN LIGASE TRIM UniProtKB/TrEMBL
  RING-TYPE DOMAIN-CONTAINING PROTEIN UniProtKB/TrEMBL
Pfam zf-RING_2 UniProtKB/TrEMBL
PhenoGen Rfpl4b PhenoGen
PROSITE ZF_RING_2 UniProtKB/TrEMBL
SMART RING UniProtKB/TrEMBL
Superfamily-SCOP ConA_like_lec_gl UniProtKB/TrEMBL
  RING/U-box UniProtKB/TrEMBL
UniProt J3QPR6 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-04-04 Rfpl4b  ret finger protein-like 4B  Gm3037  predicted gene 3037  Data merged from RGD:2309496 737654 PROVISIONAL