Fbxo39 (F-box protein 39) - Rat Genome Database

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Gene: Fbxo39 (F-box protein 39) Mus musculus
Analyze
Symbol: Fbxo39
Name: F-box protein 39
RGD ID: 1621231
MGI Page MGI
Description: Predicted to be involved in SCF-dependent proteasomal ubiquitin-dependent protein catabolic process. Predicted to be part of SCF ubiquitin ligase complex. Orthologous to human FBXO39 (F-box protein 39).
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: 1700010H23Rik; F-box only protein 39; F-box protein 38; RIKEN cDNA 1700010H23 gene; RP24-450M24.5
RGD Orthologs
Human
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: GRCm39 - Mouse Genome Assembly GRCm39
Position:
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391172,205,270 - 72,210,245 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1172,205,270 - 72,210,242 (+)EnsemblGRCm39 Ensembl
GRCm381172,314,444 - 72,319,419 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1172,314,444 - 72,319,416 (+)EnsemblGRCm38mm10GRCm38
MGSCv371172,127,946 - 72,132,921 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361172,130,285 - 72,135,614 (+)NCBIMGSCv36mm8
Celera1179,836,076 - 79,841,061 (+)NCBICelera
Cytogenetic Map11B4NCBI
cM Map1144.0NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

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
2. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:11217851   PMID:12466851   PMID:15520277   PMID:21267068   PMID:21677750   PMID:21873635  


Genomics

Comparative Map Data
Fbxo39
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391172,205,270 - 72,210,245 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1172,205,270 - 72,210,242 (+)EnsemblGRCm39 Ensembl
GRCm381172,314,444 - 72,319,419 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1172,314,444 - 72,319,416 (+)EnsemblGRCm38mm10GRCm38
MGSCv371172,127,946 - 72,132,921 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361172,130,285 - 72,135,614 (+)NCBIMGSCv36mm8
Celera1179,836,076 - 79,841,061 (+)NCBICelera
Cytogenetic Map11B4NCBI
cM Map1144.0NCBI
FBXO39
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38176,776,215 - 6,787,646 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl176,776,215 - 6,797,101 (+)EnsemblGRCh38hg38GRCh38
GRCh37176,679,534 - 6,690,965 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36176,620,296 - 6,631,689 (+)NCBINCBI36Build 36hg18NCBI36
Build 34176,620,295 - 6,631,688NCBI
Celera176,705,336 - 6,716,755 (+)NCBICelera
Cytogenetic Map17p13.1NCBI
HuRef176,575,114 - 6,586,529 (+)NCBIHuRef
CHM1_1176,689,770 - 6,701,182 (+)NCBICHM1_1
T2T-CHM13v2.0176,676,858 - 6,688,291 (+)NCBIT2T-CHM13v2.0
Fbxo39
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81057,428,259 - 57,433,468 (+)NCBIGRCr8
mRatBN7.21056,929,699 - 56,934,911 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1056,932,297 - 56,934,906 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1061,595,293 - 61,597,907 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01061,083,769 - 61,086,383 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01056,582,858 - 56,585,472 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01058,874,028 - 58,878,445 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1058,875,826 - 58,878,445 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01058,614,436 - 58,618,838 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41059,200,071 - 59,202,685 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11059,198,758 - 59,216,308 (+)NCBI
Celera1056,061,327 - 56,063,941 (+)NCBICelera
Cytogenetic Map10q24NCBI
Fbxo39
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495546712,257,700 - 12,264,977 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495546712,257,700 - 12,264,977 (+)NCBIChiLan1.0ChiLan1.0
FBXO39
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21914,369,072 - 14,384,880 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11716,335,235 - 16,347,135 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0176,806,312 - 6,818,183 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1176,795,514 - 6,806,969 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl176,795,514 - 6,806,969 (+)Ensemblpanpan1.1panPan2
FBXO39
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1530,619,510 - 30,624,377 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl530,619,794 - 30,624,493 (-)EnsemblCanFam3.1canFam3CanFam3.1
ROS_Cfam_1.0530,720,859 - 30,726,202 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl530,720,734 - 30,723,697 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1530,687,201 - 30,692,533 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0530,645,755 - 30,651,096 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0530,818,889 - 30,824,231 (-)NCBIUU_Cfam_GSD_1.0
Fbxo39
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440560254,662,294 - 54,668,954 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049366771,232,228 - 1,235,440 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049366771,232,228 - 1,235,440 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
FBXO39
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1250,635,905 - 50,640,213 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11250,635,915 - 50,723,841 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21252,636,192 - 52,709,663 (-)NCBISscrofa10.2Sscrofa10.2susScr3
FBXO39
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1166,137,561 - 6,152,853 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl166,141,561 - 6,150,401 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366605915,290,221 - 15,298,429 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Fbxo39
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046247867,262,539 - 7,269,946 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046247867,263,219 - 7,269,847 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Fbxo39
89 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:124
Count of miRNA genes:122
Interacting mature miRNAs:123
Transcripts:ENSMUST00000108504
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 (GRCm39)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
26884453Sklq16_mskull length QTL 16, 16 week (mouse)11325000072690826Mouse
13208559Wght10_mweight 10 (mouse)11395000088890826Mouse
13208558Lgth12_mbody length 12 (mouse)11395000094890826Mouse
1300905Scc6_mcolon tumor susceptibility 6 (mouse)Not determined11688027789019734Mouse
39128214Lwq20_mliver weight QTL 20 (mouse)1112268637118022724Mouse
4141894Nidd6k_mNidd6 on KK-A (mouse)Not determined1912420496897826Mouse
10412246Dfs2_mdental fluorosis suseptibility 2 (mouse)Not determined112180736495881231Mouse
13208569Bmiq10_mbody mass index QTL 10 (mouse)113589082784890826Mouse
1301328Mol4_mmodifier of LPS-response 4 (mouse)Not determined113628257783481356Mouse
11532698Sluc36a_msusceptibility to lung cancer 36a (mouse)114225661776256730Mouse
11532699Sluc36b_msusceptibility to lung cancer 36b (mouse)114225661776256730Mouse
4142300Ctrq3_mC. trachomatis resistance QTL 3 (mouse)Not determined114463003876854757Mouse
4141367Inf1_macute ozone induced inflammation (mouse)Not determined44630038113058009Mouse
1302021Nidd1n_mnon-insulin-dependent diabetes mellitus 1 in NSY (mouse)Not determined114516587379978324Mouse
1357878Mastr_mmodifier of astrocytoma (mouse)Not determined114570858189818733Mouse
1300765Bbaa4_mB.burgdorferi-associated arthritis 4 (mouse)Not determined114618516780185262Mouse
1301988Bmd11_mbone mineral density 11 (mouse)Not determined114631940780319522Mouse
1301830Ssta4_msusceptibility to Salmonella typhimurium antigens 4 (mouse)Not determined115007819184078411Mouse
13524840Ppiq9a_mprepulse inhibition QTL 9a (mouse)115249438586494385Mouse
1300774Pgia7_mproteoglycan induced arthritis 7 (mouse)Not determined115339058887390737Mouse
4141830Pregq1_mpregnancy QTL 1 (mouse)Not determined115412675283733652Mouse
4141875Etax9_methanol induced ataxia 9 (mouse)Not determined5528498572209927Mouse
4142121Tmc1m2_mTmc1 modifier 2 (mouse)Not determined1156864027114157957Mouse
1300664Etohcta9_methanol conditioned taste aversion 9 (mouse)Not determined115775466091754758Mouse
10053682Eae45_mexperimental allergic encephalomyelitis susceptibility 45 (mouse)Not determined115849055574754758Mouse
1300924Ity2_mimmunity to S. typhimurium 2 (mouse)Not determined15850803087695238Mouse
4141982Skts-fp2_mskin tumor susceptibility in FVB and PWK 2 (mouse)Not determined5871926685066529Mouse
1301987Pid3_mprior incubation determinant 3 (mouse)Not determined116168682088699728Mouse
1301319Dautb4_mdopamine uptake transporter binding 4 (mouse)Not determined116215600596156153Mouse
27226730Tibmd1_mtibia midshaft diameter 1, 5 week (mouse)1162590826109390826Mouse
1301999Lmr15_mleishmaniasis resistance 15 (mouse)Not determined116331940781830473Mouse
10044004Stzid3_mstreptozotocin induced diabetes susceptibility 3 (mouse)Not determined116331940794063918Mouse
11039502Ltpr6b_mLeishmania tropica response 6b (mouse)116483033698830473Mouse
11039501Ltpr6a_mLeishmania tropica response 6a (mouse)116483033698830473Mouse
11039515Ltpr6_mLeishmania tropica response 6 (mouse)116483033698830473Mouse
1357766Si5lq6_mserum IGFBP-5 level QTL 6 (mouse)Not determined1166733420100733652Mouse
1301546Pcir2_mperiosteal circumference 2 (mouse)Not determined1166733420100733652Mouse
1301833Tbbmd5_mtotal body bone mineral density 5 (mouse)Not determined1166733420100733652Mouse
1300628Lgth6_mbody length 6 (mouse)Not determined1166733420100733652Mouse
4141012Femwf6_mfemur work to failure 6 (mouse)Not determined66733420100733652Mouse
1300784Prdt3_mprion disease incubation time 3 (mouse)Not determined1166733420100733652Mouse
4142316Ity2b_mimmunity to S. typhimurium 2b (mouse)Not determined116707819179813912Mouse
27226783Tibl5_mtibia length 5, 5 week (mouse)1168190826101890826Mouse
36049778Ars6_mantibody response to SARS-CoV 6, day 15, IgM (mouse)116899082672490826Mouse
36049779Ars7_mantibody response to SARS-CoV 7, day 29, IgG1 (mouse)116899082672490826Mouse
36049784Ars8_mantibody response to SARS-CoV 8, day 29, IgG2a+IgG2c (mouse)116899082672490826Mouse
36049785Ars9_mantibody response to SARS-CoV 9, day 29, IgM (mouse)116899082672490826Mouse
36049786Ars10_mantibody response to SARS-CoV 10, 4 days post-rechallenge, IgG2a+IgG2c (mouse)116899082672490826Mouse
36049787Ars11_mantibody response to SARS-CoV 11, 4 days post-rechallenge, IgM (mouse)116899082672490826Mouse
36049788Ars1_mantibody response to SARS-CoV 1, day 7, IgG1 (mouse)116899082672490826Mouse
36049789Ars2_mantibody response to SARS-CoV 2, day 7, IgG2a+IgG2c (mouse)116899082672490826Mouse
36049790Ars3_mantibody response to SARS-CoV 3, day 7, IgG2b (mouse)116899082672490826Mouse
36049791Ars4_mantibody response to SARS-CoV 4, day 7, IgG3 (mouse)116899082672490826Mouse
36049792Ars5_mantibody response to SARS-CoV 5, day 7, IgM (mouse)116899082672490826Mouse
35673314Ari2_mantibody response to influenza 2, day 10, IgG3 (mouse)116899082672490826Mouse
1558812Rafar_mretinoic acid induced forelimb autopod reduction (mouse)Not determined1170691198104691366Mouse
1301681Sle13_msystematic lupus erythematosus susceptibility 13 (mouse)Not determined1170691198104691366Mouse
1300651Pcyts3_mplasmacytoma susceptibility 3 (mouse)Not determined1170691198104691366Mouse
4141339Nilac2_mnicotine induced locomotor activity 2 (mouse)Not determined1170691198104691366Mouse
1301404Sbmd4_mspinal bone mineral density 4 (mouse)Not determined1172019649106019734Mouse
1301078Alcp2_malcohol preference locus 2 (mouse)Not determined117220979684731462Mouse

Markers in Region
D11Mit219  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm381172,318,970 - 72,319,101UniSTSGRCm38
MGSCv371172,132,472 - 72,132,603UniSTSGRCm37
Celera1179,840,594 - 79,840,743UniSTS
Cytogenetic Map11B4UniSTS
cM Map1143.0UniSTS
Whitehead Genetic1140.4UniSTS
Whitehead/MRC_RH11920.27UniSTS
Whitehead_YAC11 UniSTS
AU027889  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm381172,319,002 - 72,319,150UniSTSGRCm38
MGSCv371172,132,504 - 72,132,652UniSTSGRCm37
Celera1179,840,626 - 79,840,792UniSTS
Cytogenetic Map11B4UniSTS


Expression


Sequence


RefSeq Acc Id: ENSMUST00000108504   ⟹   ENSMUSP00000104144
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1172,205,270 - 72,210,242 (+)Ensembl
GRCm38.p6 Ensembl1172,314,444 - 72,319,416 (+)Ensembl
RefSeq Acc Id: NM_001099688   ⟹   NP_001093158
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391172,205,270 - 72,210,245 (+)NCBI
GRCm381172,314,444 - 72,319,419 (+)NCBI
MGSCv371172,127,946 - 72,132,921 (+)RGD
Celera1179,836,076 - 79,841,061 (+)RGD
cM Map11 ENTREZGENE
Sequence:
RefSeq Acc Id: XM_006533901   ⟹   XP_006533964
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391172,205,293 - 72,210,245 (+)NCBI
GRCm381172,314,467 - 72,319,419 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006533902   ⟹   XP_006533965
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391172,205,293 - 72,210,245 (+)NCBI
GRCm381172,314,467 - 72,319,419 (+)NCBI
Sequence:
Protein Sequences
Protein RefSeqs NP_001093158 (Get FASTA)   NCBI Sequence Viewer  
  XP_006533964 (Get FASTA)   NCBI Sequence Viewer  
  XP_006533965 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSMUSP00000104144
  ENSMUSP00000104144.2
GenBank Protein Q5NBU5 (Get FASTA)   NCBI Sequence Viewer  
RefSeq Acc Id: NP_001093158   ⟸   NM_001099688
- UniProtKB: Q5NBU5 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_006533964   ⟸   XM_006533901
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_006533965   ⟸   XM_006533902
- Peptide Label: isoform X2
- UniProtKB: Q5NBU5 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: ENSMUSP00000104144   ⟸   ENSMUST00000108504
Protein Domains
F-box

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q5NBU5-F1-model_v2 AlphaFold Q5NBU5 1-443 view protein structure

Promoters
RGD ID:6820874
Promoter ID:MM_KWN:8314
Type:CpG-Island
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:BoneMarrow_0Hour,   BoneMarrow_2Hour,   BoneMarrow_4Hour
Transcripts:NM_001099688
Position:
Mouse AssemblyChrPosition (strand)Source
MGSCv361172,127,571 - 72,128,071 (+)MPROMDB
RGD ID:8675432
Promoter ID:EPDNEW_M15747
Type:initiation region
Name:Fbxo39_1
Description:Mus musculus F-box protein 39 , 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
GRCm381172,314,467 - 72,314,527EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene MGI:3505735 AgrOrtholog
Ensembl Genes ENSMUSG00000070388 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSMUST00000108504 ENTREZGENE
  ENSMUST00000108504.2 UniProtKB/Swiss-Prot
Gene3D-CATH 1.20.1280.50 UniProtKB/Swiss-Prot
  3.80.10.10 UniProtKB/Swiss-Prot
InterPro F-box-like_dom_sf UniProtKB/Swiss-Prot
  F-box_dom UniProtKB/Swiss-Prot
  FBXO31/39 UniProtKB/Swiss-Prot
  LRR_dom_sf UniProtKB/Swiss-Prot
KEGG Report mmu:628100 UniProtKB/Swiss-Prot
MGD MGI:3505735 ENTREZGENE
NCBI Gene 628100 ENTREZGENE
PANTHER F-BOX ONLY PROTEIN 39 UniProtKB/Swiss-Prot
  PTHR10706 UniProtKB/Swiss-Prot
Pfam F-box-like UniProtKB/Swiss-Prot
PhenoGen Fbxo39 PhenoGen
PROSITE FBOX UniProtKB/Swiss-Prot
Superfamily-SCOP RNI-like UniProtKB/Swiss-Prot
  SSF81383 UniProtKB/Swiss-Prot
UniProt FBX39_MOUSE UniProtKB/Swiss-Prot, ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-04-05 Fbxo39  F-box protein 39  1700010H23Rik  RIKEN cDNA 1700010H23 gene  Data merged from RGD:1609496 737654 PROVISIONAL