Fbxo42 (F-box protein 42) - Rat Genome Database

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Gene: Fbxo42 (F-box protein 42) Rattus norvegicus
Analyze
Symbol: Fbxo42
Name: F-box protein 42
RGD ID: 1304787
Description: Predicted to enable ubiquitin ligase-substrate adaptor activity. Predicted to be part of SCF ubiquitin ligase complex. Orthologous to human FBXO42 (F-box protein 42); INTERACTS WITH 2,4-dinitrotoluene; 2,6-dinitrotoluene; 6-propyl-2-thiouracil.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: F-box only protein 42; LOC362646
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
GRCr85158,734,165 - 158,792,560 (+)NCBIGRCr8
mRatBN7.25153,451,162 - 153,509,564 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl5153,451,153 - 153,506,342 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx5156,139,864 - 156,198,142 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.05157,913,137 - 157,971,419 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.05157,902,324 - 157,960,606 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.05159,670,662 - 159,729,070 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl5159,670,662 - 159,729,064 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.05163,382,899 - 163,444,733 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.45160,005,496 - 160,061,687 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.15160,015,781 - 160,072,342 (+)NCBI
Celera5151,815,504 - 151,870,636 (+)NCBICelera
Cytogenetic Map5q36NCBI
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

Cellular Component

Molecular Function

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. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
3. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions

Genomics

Comparative Map Data
Fbxo42
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr85158,734,165 - 158,792,560 (+)NCBIGRCr8
mRatBN7.25153,451,162 - 153,509,564 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl5153,451,153 - 153,506,342 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx5156,139,864 - 156,198,142 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.05157,913,137 - 157,971,419 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.05157,902,324 - 157,960,606 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.05159,670,662 - 159,729,070 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl5159,670,662 - 159,729,064 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.05163,382,899 - 163,444,733 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.45160,005,496 - 160,061,687 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.15160,015,781 - 160,072,342 (+)NCBI
Celera5151,815,504 - 151,870,636 (+)NCBICelera
Cytogenetic Map5q36NCBI
FBXO42
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38116,246,840 - 16,352,480 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl116,246,840 - 16,352,480 (-)EnsemblGRCh38hg38GRCh38
GRCh37116,573,335 - 16,678,975 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36116,449,146 - 16,551,535 (-)NCBINCBI36Build 36hg18NCBI36
Build 34116,321,865 - 16,424,254NCBI
Celera115,056,452 - 15,158,874 (-)NCBICelera
Cytogenetic Map1p36.13NCBI
HuRef115,093,755 - 15,196,329 (-)NCBIHuRef
CHM1_1116,375,153 - 16,477,623 (-)NCBICHM1_1
T2T-CHM13v2.0115,688,176 - 15,793,999 (-)NCBIT2T-CHM13v2.0
Fbxo42
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm394140,875,216 - 140,931,373 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl4140,875,224 - 140,931,373 (+)EnsemblGRCm39 Ensembl
GRCm384141,147,922 - 141,204,062 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl4141,147,913 - 141,204,062 (+)EnsemblGRCm38mm10GRCm38
MGSCv374140,703,837 - 140,759,977 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv364140,420,007 - 140,476,138 (+)NCBIMGSCv36mm8
Celera4142,955,099 - 143,012,796 (+)NCBICelera
Cytogenetic Map4D3NCBI
cM Map473.41NCBI
Fbxo42
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049555271,967,232 - 2,049,524 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049555271,967,232 - 2,049,524 (+)NCBIChiLan1.0ChiLan1.0
FBXO42
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21210,568,617 - 210,674,961 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11209,817,242 - 209,923,531 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0115,383,505 - 15,489,800 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1116,375,319 - 16,481,012 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl116,375,319 - 16,481,012 (-)Ensemblpanpan1.1panPan2
FBXO42
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1281,358,204 - 81,460,603 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl281,358,212 - 81,456,916 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha277,894,110 - 77,996,832 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0282,003,981 - 82,105,114 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl282,003,974 - 82,106,745 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1278,756,902 - 78,858,094 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0279,773,947 - 79,876,973 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0280,842,557 - 80,943,172 (+)NCBIUU_Cfam_GSD_1.0
Fbxo42
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440505837,913,546 - 37,994,035 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049364743,738,234 - 3,818,842 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049364743,738,332 - 3,818,796 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
FBXO42
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl675,364,450 - 75,446,085 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1675,365,130 - 75,446,121 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2669,680,295 - 69,761,252 (-)NCBISscrofa10.2Sscrofa10.2susScr3
FBXO42
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.120115,971,342 - 116,056,150 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl20115,971,369 - 116,059,285 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366605419,454,277 - 19,554,377 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Fbxo42
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046247642,368,251 - 2,466,298 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046247642,368,251 - 2,465,867 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Fbxo42
330 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:173
Count of miRNA genes:113
Interacting mature miRNAs:146
Transcripts:ENSRNOT00000019195
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.


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1576314Eutr1Estrogen induced uterine response QTL 1uterus integrity trait (VT:0010575)pyometritis severity score (CMO:0002009)52138965166875058Rat
1578766Tcas11Tongue tumor susceptibility QTL 114.12tongue integrity trait (VT:0010553)number of squamous cell tumors of the tongue with diameter greater than 3 mm (CMO:0001950)546711509161317411Rat
61393Bp7Blood pressure QTL 74.50.0001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)560293434161481680Rat
1302790Scl20Serum cholesterol level QTL 206.40.0001blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)582394392166664054Rat
1298089Scl14Serum cholesterol level QTL 145.80.0004blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)5108845856153845856Rat
1598847Cm62Cardiac mass QTL 623.4heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)5108845856153845856Rat
8657050Bw146Body weight QTL 14619.840.001body mass (VT:0001259)body weight gain (CMO:0000420)5108938288153938288Rat
8694441Bw169Body weight QTL 16917.610.001retroperitoneal fat pad mass (VT:0010430)retroperitoneal fat pad weight to body weight ratio (CMO:0000635)5111416838156416838Rat
8694198Abfw3Abdominal fat weight QTL 316.130.001visceral adipose mass (VT:0010063)abdominal fat pad weight to body weight ratio (CMO:0000095)5111416838156416838Rat
8694389Bw160Body weight QTL 1606.170.001body lean mass (VT:0010483)lean tissue morphological measurement (CMO:0002184)5111416838156416838Rat
8552960Pigfal15Plasma insulin-like growth factor 1 level QTL 15blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)5111416838156416838Rat
1641920Colcs1Colorectal carcinoma susceptibility QTL 12.990.0055intestine integrity trait (VT:0010554)benign colorectal tumor surface area measurement (CMO:0001799)5121846814166846814Rat
10053720Scort26Serum corticosterone level QTL 262.060.0147blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)5124965598166875058Rat
724525Bp147Blood pressure QTL 1474.30.0001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)5126424772166875058Rat
1598819Bp292Blood pressure QTL 2924.3arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)5127798274166875058Rat
1598861Cm64Cardiac mass QTL 642.9heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)5127798274166875058Rat
8552908Pigfal4Plasma insulin-like growth factor 1 level QTL 46.6blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)5128506074166875058Rat
8694169Bw148Body weight QTL 14850.001body mass (VT:0001259)body weight gain (CMO:0000420)5128506074166875058Rat
634349Bp139Blood pressure QTL 1390.001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)5128924607166875058Rat
738018Anxrr4Anxiety related response QTL 45.1exploratory behavior trait (VT:0010471)percentage of entries into a discrete space in an experimental apparatus (CMO:0000961)5130130159166875058Rat
7794791Mcs33Mammary carcinoma susceptibility QTL 331.93mammary gland integrity trait (VT:0010552)mammary tumor incidence/prevalence measurement (CMO:0000946)5131345754166875058Rat
631505Bp103Blood pressure QTL 1033.2arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)5132717196165560427Rat
631562Apr2Acute phase response QTL 23.7blood murinoglobulin 1 amount (VT:0010597)plasma murinoglobulin 1 level (CMO:0001931)5135927956166875058Rat
61444Strs2Sensitivity to stroke QTL 24.7cerebrum integrity trait (VT:0010549)post-insult time to onset of cerebrovascular lesion (CMO:0002343)5135929696166875058Rat
1331721Bp210Blood pressure QTL 2103.413arterial blood pressure trait (VT:2000000)blood pressure time series experimental set point of the baroreceptor response (CMO:0002593)5143069996166846814Rat
2302369Scl60Serum cholesterol level QTL 603.13blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)5143608201161165651Rat
631263Cm24Cardiac mass QTL 243.5heart mass (VT:0007028)heart left ventricle weight to body weight ratio (CMO:0000530)5143799107158428037Rat
1300119Bp180Blood pressure QTL 1803.82arterial blood pressure trait (VT:2000000)blood pressure time series experimental set point of the baroreceptor response (CMO:0002593)5144358090157869054Rat
2313096Bmd78Bone mineral density QTL 783.10.0001tibia mineral mass (VT:1000283)total volumetric bone mineral density (CMO:0001728)5144377876161317411Rat
1298090Bp155Blood pressure QTL 1553.8arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)5151006154161165494Rat
1354631Swd2Spike wave discharge measurement QTL 23.640.0002brain electrophysiology trait (VT:0010557)brain total spike-and-wave discharge duration (CMO:0001740)5151113452164465185Rat
631272Lanf1Left ventricular atrial natriuretic factor QTL 112heart left ventricle natriuretic peptide A amount (VT:0010596)heart left ventricle natriuretic peptide A level (CMO:0002165)5151113452166875058Rat

Markers in Region
BE120735  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.25153,506,143 - 153,506,323 (+)MAPPERmRatBN7.2
Rnor_6.05159,725,645 - 159,725,824NCBIRnor6.0
Rnor_5.05163,441,308 - 163,441,487UniSTSRnor5.0
RGSC_v3.45160,061,489 - 160,061,668UniSTSRGSC3.4
Celera5151,870,438 - 151,870,617UniSTS
RH 3.4 Map51052.4UniSTS
Cytogenetic Map5q36UniSTS


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 1 20 16 16 4 16 66 21 32 3
Low 2 23 41 25 15 25 8 11 8 14 9 8 8
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000019195   ⟹   ENSRNOP00000019195
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl5153,451,153 - 153,506,342 (+)Ensembl
Rnor_6.0 Ensembl5159,670,662 - 159,725,843 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000084737   ⟹   ENSRNOP00000068831
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl5159,671,136 - 159,729,064 (+)Ensembl
RefSeq Acc Id: NM_001395590   ⟹   NP_001382519
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr85158,734,165 - 158,792,560 (+)NCBI
mRatBN7.25153,451,162 - 153,509,564 (+)NCBI
Protein Sequences
Protein RefSeqs NP_001382519 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein EDL80969 (Get FASTA)   NCBI Sequence Viewer  
  EDL80970 (Get FASTA)   NCBI Sequence Viewer  
  EDL80971 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000019195
  ENSRNOP00000019195.7
Reference Protein Sequences
RefSeq Acc Id: ENSRNOP00000068831   ⟸   ENSRNOT00000084737
RefSeq Acc Id: ENSRNOP00000019195   ⟸   ENSRNOT00000019195
RefSeq Acc Id: NP_001382519   ⟸   NM_001395590
- UniProtKB: D4AE47 (UniProtKB/TrEMBL)

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-A0A0G2JTS9-F1-model_v2 AlphaFold A0A0G2JTS9 1-717 view protein structure

Transcriptome

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

Promoters
RGD ID:13694221
Promoter ID:EPDNEW_R4746
Type:initiation region
Name:Fbxo42_1
Description:F-box protein 42
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_6.05159,670,681 - 159,670,741EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1304787 AgrOrtholog
BioCyc Gene G2FUF-39361 BioCyc
Ensembl Genes ENSRNOG00000014305 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000019195 ENTREZGENE
  ENSRNOT00000019195.8 UniProtKB/TrEMBL
Gene3D-CATH 1.20.1280.50 UniProtKB/TrEMBL
  2.120.10.80 UniProtKB/TrEMBL
InterPro F-box_dom_cyclin-like UniProtKB/TrEMBL
  F-box_dom_like UniProtKB/TrEMBL
  Kelch-typ_b-propeller UniProtKB/TrEMBL
NCBI Gene 362646 ENTREZGENE
PANTHER F-BOX ONLY PROTEIN 42 UniProtKB/TrEMBL
  F-BOX ONLY PROTEIN 42 UniProtKB/TrEMBL
Pfam F-box-like UniProtKB/TrEMBL
  Kelch_3 UniProtKB/TrEMBL
  Kelch_5 UniProtKB/TrEMBL
PhenoGen Fbxo42 PhenoGen
PROSITE FBOX UniProtKB/TrEMBL
RatGTEx ENSRNOG00000014305 RatGTEx
SMART FBOX UniProtKB/TrEMBL
Superfamily-SCOP F-box_dom_Skp2-like UniProtKB/TrEMBL
  SSF117281 UniProtKB/TrEMBL
UniProt D4AE47 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-04-30 Fbxo42  F-box protein 42   Fbxo42_predicted  F-box protein 42 (predicted)  'predicted' is removed 2292626 APPROVED
2005-01-12 Fbxo42_predicted  F-box protein 42 (predicted)      Symbol and Name status set to approved 70820 APPROVED