Fbxo28 (F-box protein 28) - Rat Genome Database

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Gene: Fbxo28 (F-box protein 28) Rattus norvegicus
Analyze
Symbol: Fbxo28
Name: F-box protein 28
RGD ID: 1304584
Description: Predicted to enable identical protein binding activity. Predicted to be involved in protein polyubiquitination. Predicted to be located in kinetochore. Human ortholog(s) of this gene implicated in developmental and epileptic encephalopathy 100. Orthologous to human FBXO28 (F-box protein 28); INTERACTS WITH 2,4-dinitrotoluene; bisphenol A; fenvalerate.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: F-box only protein 28; LOC305105
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
GRCr81396,527,667 - 96,553,138 (-)NCBIGRCr8
mRatBN7.21393,995,993 - 94,021,464 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1393,995,996 - 94,021,464 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1396,501,261 - 96,526,734 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01397,901,180 - 97,926,651 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01395,083,362 - 95,108,833 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.013100,715,257 - 100,740,728 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl13100,715,260 - 100,740,728 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.013105,649,127 - 105,674,598 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41398,317,300 - 98,342,771 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11398,505,829 - 98,531,709 (-)NCBI
Celera1393,529,672 - 93,555,143 (-)NCBICelera
Cytogenetic Map13q26NCBI
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
kinetochore  (ISO)

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
Additional References at PubMed
PMID:12477932   PMID:20813266   PMID:33215444  


Genomics

Comparative Map Data
Fbxo28
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81396,527,667 - 96,553,138 (-)NCBIGRCr8
mRatBN7.21393,995,993 - 94,021,464 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1393,995,996 - 94,021,464 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1396,501,261 - 96,526,734 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01397,901,180 - 97,926,651 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01395,083,362 - 95,108,833 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.013100,715,257 - 100,740,728 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl13100,715,260 - 100,740,728 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.013105,649,127 - 105,674,598 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41398,317,300 - 98,342,771 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11398,505,829 - 98,531,709 (-)NCBI
Celera1393,529,672 - 93,555,143 (-)NCBICelera
Cytogenetic Map13q26NCBI
FBXO28
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381224,114,111 - 224,162,047 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1224,114,111 - 224,162,047 (+)EnsemblGRCh38hg38GRCh38
GRCh371224,301,813 - 224,349,749 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361222,368,436 - 222,413,869 (+)NCBINCBI36Build 36hg18NCBI36
Build 341220,608,547 - 220,653,981NCBI
Celera1197,492,695 - 197,540,680 (+)NCBICelera
Cytogenetic Map1q42.11NCBI
HuRef1194,822,576 - 194,870,477 (+)NCBIHuRef
CHM1_11225,574,426 - 225,622,384 (+)NCBICHM1_1
T2T-CHM13v2.01223,303,343 - 223,351,289 (+)NCBIT2T-CHM13v2.0
Fbxo28
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391182,140,667 - 182,169,171 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1182,140,667 - 182,169,194 (-)EnsemblGRCm39 Ensembl
GRCm381182,313,102 - 182,341,606 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1182,313,102 - 182,341,629 (-)EnsemblGRCm38mm10GRCm38
MGSCv371184,243,233 - 184,271,737 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361184,149,777 - 184,178,281 (-)NCBIMGSCv36mm8
Celera1189,355,654 - 189,384,015 (-)NCBICelera
Cytogenetic Map1H5NCBI
cM Map184.93NCBI
Fbxo28
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049555201,169,447 - 1,198,426 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049555201,169,624 - 1,198,277 (-)NCBIChiLan1.0ChiLan1.0
FBXO28
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2125,365,776 - 25,408,922 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1125,316,694 - 25,364,749 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01199,582,552 - 199,630,575 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11204,593,073 - 204,638,769 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1204,593,073 - 204,638,769 (+)Ensemblpanpan1.1panPan2
FBXO28
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1740,168,914 - 40,202,545 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl740,172,641 - 40,202,722 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha739,651,029 - 39,684,669 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0740,003,566 - 40,037,149 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl740,003,568 - 40,037,179 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1739,844,383 - 39,877,969 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0739,852,007 - 39,885,597 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0740,120,634 - 40,154,230 (-)NCBIUU_Cfam_GSD_1.0
Fbxo28
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440934453,623,042 - 53,656,308 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365261,090,706 - 1,124,639 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049365261,090,983 - 1,124,256 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
FBXO28
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1019,936,244 - 19,968,956 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11019,936,217 - 19,968,960 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21024,574,132 - 24,606,624 (+)NCBISscrofa10.2Sscrofa10.2susScr3
FBXO28
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1255,617,311 - 5,661,206 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl255,621,596 - 5,661,183 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_0236660555,805,279 - 5,849,169 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Fbxo28
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046248355,835,767 - 5,864,328 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046248355,835,906 - 5,863,972 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Fbxo28
145 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:56
Count of miRNA genes:53
Interacting mature miRNAs:55
Transcripts:ENSRNOT00000000074
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
7207885Glom27Glomerulus QTL 273.9kidney glomerulus integrity trait (VT:0010546)kidney crescentic glomeruli count to kidney normal glomeruli count ratio (CMO:0002139)1320605871101339738Rat
8655959Pur32Proteinuria QTL 328.4urine total protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)137402391897213863Rat
1354621Rf47Renal function QTL 473.7kidney renin amount (VT:0010559)kidney renin level (CMO:0002166)1330395351101056920Rat
1354655Bp241Blood pressure QTL 2413.9arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1356056920101056920Rat
1354666Bp244Blood pressure QTL 2444.9arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)131101056920Rat
1354666Bp244Blood pressure QTL 2444.9arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)131101056920Rat
1354666Bp244Blood pressure QTL 2444.9arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)131101056920Rat
1641901Alcrsp6Alcohol response QTL 6response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)135236217197362171Rat
1581570Eae17Experimental allergic encephalomyelitis QTL 174.1nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis incidence/prevalence measurement (CMO:0001046)138897350101631289Rat
2293341Glom15Glomerulus QTL 159.1kidney glomerulus integrity trait (VT:0010546)kidney sclerotic glomeruli count to total glomeruli count ratio (CMO:0001269)1374862117101339893Rat
12879475Bp400Blood pressure QTL 400arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1361825626106807694Rat
2293702Bss34Bone structure and strength QTL 344.610.0001femur strength trait (VT:0010010)femur midshaft polar moment of inertia (CMO:0001669)1365103704106807694Rat
2293687Bss26Bone structure and strength QTL 264.60.0001femur morphology trait (VT:0000559)femur cross-sectional area (CMO:0001661)1365103704106807694Rat
4889606Gluco63Glucose level QTL 632.860.003blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)1380753256106807694Rat


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 30 46 30 19 30 8 11 74 35 41 11 8
Low 13 11 11 11
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000000074   ⟹   ENSRNOP00000000074
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1393,995,996 - 94,021,464 (-)Ensembl
Rnor_6.0 Ensembl13100,715,260 - 100,740,728 (-)Ensembl
RefSeq Acc Id: NM_001107203   ⟹   NP_001100673
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81396,527,667 - 96,553,138 (-)NCBI
mRatBN7.21393,995,993 - 94,021,464 (-)NCBI
Rnor_6.013100,715,257 - 100,740,728 (-)NCBI
Rnor_5.013105,649,127 - 105,674,598 (-)NCBI
RGSC_v3.41398,317,300 - 98,342,771 (-)RGD
Celera1393,529,672 - 93,555,143 (-)RGD
Sequence:
Protein Sequences
Protein RefSeqs NP_001100673 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAI67003 (Get FASTA)   NCBI Sequence Viewer  
  EDL94872 (Get FASTA)   NCBI Sequence Viewer  
  EDL94873 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000000074
  ENSRNOP00000000074.5
Reference Protein Sequences
RefSeq Acc Id: NP_001100673   ⟸   NM_001107203
- UniProtKB: B2RZ28 (UniProtKB/TrEMBL),   F7EV56 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000000074   ⟸   ENSRNOT00000000074
Protein Domains
F-box

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-B2RZ28-F1-model_v2 AlphaFold B2RZ28 1-368 view protein structure

Transcriptome

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

Promoters
RGD ID:13699077
Promoter ID:EPDNEW_R9602
Type:multiple initiation site
Name:Fbxo28_1
Description:F-box protein 28
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_6.013100,740,742 - 100,740,802EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1304584 AgrOrtholog
BioCyc Gene G2FUF-17076 BioCyc
Ensembl Genes ENSRNOG00000000066 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000000074 ENTREZGENE
  ENSRNOT00000000074.6 UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:8366732 IMAGE-MGC_LOAD
InterPro F-box_dom_cyclin-like UniProtKB/TrEMBL
  F-box_dom_like UniProtKB/TrEMBL
  FBXO28 UniProtKB/TrEMBL
KEGG Report rno:305105 UniProtKB/TrEMBL
MGC_CLONE MGC:189169 IMAGE-MGC_LOAD
NCBI Gene 305105 ENTREZGENE
PANTHER F-BOX ONLY PROTEIN 28 UniProtKB/TrEMBL
  PTHR13252 UniProtKB/TrEMBL
Pfam F-box UniProtKB/TrEMBL
PhenoGen Fbxo28 PhenoGen
PROSITE FBOX UniProtKB/TrEMBL
RatGTEx ENSRNOG00000000066 RatGTEx
Superfamily-SCOP SSF81383 UniProtKB/TrEMBL
UniProt B2RZ28 ENTREZGENE, UniProtKB/TrEMBL
  F7EV56 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-04-30 Fbxo28  F-box protein 28   Fbxo28_predicted  F-box protein 28 (predicted)  'predicted' is removed 2292626 APPROVED
2005-01-12 Fbxo28_predicted  F-box protein 28 (predicted)      Symbol and Name status set to approved 70820 APPROVED