Fbxl16 (F-box and leucine-rich repeat protein 16) - Rat Genome Database

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Gene: Fbxl16 (F-box and leucine-rich repeat protein 16) Rattus norvegicus
Analyze
Symbol: Fbxl16
Name: F-box and leucine-rich repeat protein 16
RGD ID: 1309127
Description: Predicted to be involved in SCF-dependent proteasomal ubiquitin-dependent protein catabolic process. Located in cytoplasm. Orthologous to human FBXL16 (F-box and leucine rich repeat protein 16); INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; acetamide; bisphenol A.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: F-box and leucine-rich repeat protein 16 (predicted); F-box/LRR-repeat protein 16; Fbxl16_predicted; LOC287153; Scirr1; spinal cord injury and regeneration related 1; spinal cord injury and regeneration-related protein 1
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Black Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81015,333,996 - 15,346,253 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl1015,334,014 - 15,346,232 (+)EnsemblGRCr8
mRatBN7.21014,829,453 - 14,841,739 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1014,829,449 - 14,840,986 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx1019,575,806 - 19,578,981 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01019,064,684 - 19,067,859 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01014,565,006 - 14,568,181 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.01015,176,489 - 15,188,729 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1015,183,803 - 15,186,978 (+)Ensemblrn6Rnor6.0
Rnor_5.01014,989,402 - 15,001,555 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.41015,082,199 - 15,085,374 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera1014,505,756 - 14,508,931 (+)NCBICelera
RGSC_v3.11015,082,198 - 15,085,374 (+)NCBI
Cytogenetic Map10q12NCBI
JBrowse:




Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

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. Identification and characterization of scirr1, a novel gene up-regulated after spinal cord injury. Liu T, etal., Exp Mol Med. 2007 Jun 30;39(3):255-66.
3. GOA pipeline RGD automated data pipeline
4. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:19028597   PMID:25931508  


Genomics

Comparative Map Data
Fbxl16
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81015,333,996 - 15,346,253 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl1015,334,014 - 15,346,232 (+)EnsemblGRCr8
mRatBN7.21014,829,453 - 14,841,739 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1014,829,449 - 14,840,986 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx1019,575,806 - 19,578,981 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01019,064,684 - 19,067,859 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01014,565,006 - 14,568,181 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.01015,176,489 - 15,188,729 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1015,183,803 - 15,186,978 (+)Ensemblrn6Rnor6.0
Rnor_5.01014,989,402 - 15,001,555 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.41015,082,199 - 15,085,374 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera1014,505,756 - 14,508,931 (+)NCBICelera
RGSC_v3.11015,082,198 - 15,085,374 (+)NCBI
Cytogenetic Map10q12NCBI
FBXL16
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh3816692,500 - 705,801 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl16692,498 - 705,843 (-)Ensemblhg38GRCh38
GRCh3716742,500 - 755,801 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 3616682,503 - 695,809 (-)NCBIBuild 36Build 36hg18NCBI36
Build 3416682,506 - 695,809NCBI
Celera16942,657 - 955,990 (-)NCBICelera
Cytogenetic Map16p13.3NCBI
HuRef16664,377 - 678,077 (-)NCBIHuRef
CHM1_116742,474 - 755,798 (-)NCBICHM1_1
T2T-CHM13v2.016696,575 - 709,982 (-)NCBIT2T-CHM13v2.0
Fbxl16
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391726,027,435 - 26,040,236 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1726,028,059 - 26,040,229 (+)EnsemblGRCm39 EnsemblGRCm39
GRCm381725,808,461 - 25,821,262 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1725,809,085 - 25,821,255 (+)Ensemblmm10GRCm38
MGSCv371725,946,030 - 25,958,210 (+)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv361725,536,705 - 25,548,865 (+)NCBIMGSCv36mm8
Celera1726,341,910 - 26,354,088 (+)NCBICelera
Cytogenetic Map17A3.3NCBI
cM Map1712.91NCBI
Fbxl16
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495544216,498,903 - 16,510,635 (+)Ensembl
ChiLan1.0NW_00495544216,498,903 - 16,510,640 (+)NCBIChiLan1.0ChiLan1.0
FBXL16
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v218933,463 - 946,532 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1164,717,330 - 4,730,400 (-)NCBINHGRI_mPanPan1
PanPan1.116708,281 - 719,416 (-)NCBIPanPan1.1PanPan1.1panPan2
PanPan1.1 Ensembl16708,401 - 711,626 (-)EnsemblpanPan2panpan1.1
FBXL16
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1639,879,314 - 39,884,995 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl639,880,518 - 39,888,020 (+)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_Tasha641,138,113 - 41,149,360 (+)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.0640,216,627 - 40,227,876 (+)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl640,216,431 - 40,227,837 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1639,905,220 - 39,916,468 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0639,865,430 - 39,876,677 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0640,344,317 - 40,355,798 (+)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
Fbxl16
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024409344112,210,822 - 112,222,606 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_004936501308,531 - 319,055 (+)EnsemblSpeTri2.0 Ensembl
SpeTri2.0NW_004936501308,682 - 320,774 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
FBXL16
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl341,071,823 - 41,083,644 (+)EnsemblsusScr11Sscrofa11.1
Sscrofa11.1341,071,783 - 41,083,653 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2341,394,122 - 41,405,995 (-)NCBISscrofa10.2Sscrofa10.2susScr3
FBXL16
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.15612,449 - 625,530 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl5610,490 - 625,493 (-)EnsemblChlSab1.1 EnsemblchlSab2Vervet-AGM
Vero_WHO_p1.0NW_02366606830,511,661 - 30,524,864 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Fbxl16
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046249131,502,408 - 1,516,413 (-)EnsemblHetGla_female_1.0 EnsemblhetGla2HetGla_female_1.0 Ensembl
HetGla 1.0NW_0046249131,504,301 - 1,516,321 (-)NCBIHetGla 1.0HetGla 1.0hetGla2
Fbxl16
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v193,082,135 - 3,086,367 (+)NCBIRrattus_CSIRO_v1

Variants

.
Variants in Fbxl16
105 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:74
Count of miRNA genes:67
Interacting mature miRNAs:73
Transcripts:ENSRNOT00000039777
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 (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
2313095Bss62Bone structure and strength QTL 621.50.0001tibia size trait (VT:0100001)tibia midshaft cross-sectional area (CMO:0001717)10589381150893811Rat
631660Hcar1Hepatocarcinoma resistance QTL 13.40.0001liver integrity trait (VT:0010547)volume of individual liver tumorous lesion (CMO:0001078)10666111835509383Rat
8662860Vetf10Vascular elastic tissue fragility QTL 10artery integrity trait (VT:0010639)number of ruptures of the internal elastic lamina of the abdominal aorta and iliac arteries (CMO:0002562)10666092373950353Rat
2313066Bss63Bone structure and strength QTL 631.40.0001tibia strength trait (VT:1000284)bone polar moment of inertia (CMO:0001558)10589381150893811Rat
631554Bp133Blood pressure QTL 1330.005arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)10125055464349221Rat
2313064Bmd71Bone mineral density QTL 710.90.0001tibia mineral mass (VT:1000283)compact volumetric bone mineral density (CMO:0001730)10589381150893811Rat
2301967Cm73Cardiac mass QTL 734.55heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)101499153586964295Rat
631268Cia21Collagen induced arthritis QTL 213.1joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1014991535107713808Rat
70223Bp57Blood pressure QTL 575arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)101465354159653541Rat
1578761Stresp21Stress response QTL 213.3thymus mass (VT:0004954)thymus wet weight (CMO:0000855)10687714251877142Rat
2293680Bss40Bone structure and strength QTL 405.660.0001femur strength trait (VT:0010010)femur total energy absorbed before break (CMO:0001677)10135730538Rat
7387235Uae41Urinary albumin excretion QTL 415.260.1874urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)10130004247Rat
2313104Bss61Bone structure and strength QTL 610.90.0001tibia area (VT:1000281)tibia midshaft cross-sectional area (CMO:0001717)10589381150893811Rat
61427Cia16Collagen induced arthritis QTL 163.2joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)10686461896620484Rat
10401803Kidm50Kidney mass QTL 50kidney mass (VT:0002707)both kidneys wet weight (CMO:0000085)1092219745922197Rat
2316949Gluco60Glucose level QTL 603.7blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)1014991535107556066Rat
2317754Glom25Glomerulus QTL 253.5urine protein amount (VT:0005160)urine protein level (CMO:0000591)10210370847103708Rat
2313081Bss64Bone structure and strength QTL 641.30.0001tibia strength trait (VT:1000284)tibia total energy absorbed before break (CMO:0001736)10589381150893811Rat
631828Alc5Alcohol consumption QTL 52.4consumption behavior trait (VT:0002069)ethanol drink intake rate (CMO:0001407)10117749933Rat
634327Hc4Hypercalciuria QTL 42.4urine calcium amount (VT:0002985)urine calcium excretion rate (CMO:0000763)10138832698Rat


Expression

RNA-SEQ Expression

alimentary part of gastrointestinal system
appendage
circulatory system
ectoderm
endocrine system
endoderm
exocrine system
hemolymphoid system
hepatobiliary system
integumental system
mesenchyme
mesoderm
musculoskeletal system
nervous system
renal system
reproductive system
respiratory system
sensory system
visual system
16 12 67 163 84 83 55 57 55 6 313 157 11 142 77 92 28 17 17

Sequence


Ensembl Acc Id: ENSRNOT00000039777   ⟹   ENSRNOP00000035846
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1015,334,035 - 15,346,232 (+)Ensembl
mRatBN7.2 Ensembl1014,829,449 - 14,840,986 (+)Ensembl
Rnor_6.0 Ensembl1015,183,803 - 15,186,978 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000157201   ⟹   ENSRNOP00000102449
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1015,334,014 - 15,344,353 (+)Ensembl
RefSeq Acc Id: NM_001009504   ⟹   NP_001009504
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81015,334,044 - 15,346,250 (+)NCBI
mRatBN7.21014,829,528 - 14,841,736 (+)NCBI
Rnor_6.01015,183,803 - 15,186,978 (+)NCBI
Rnor_5.01014,989,402 - 15,001,555 (+)NCBI
RGSC_v3.41015,082,199 - 15,085,374 (+)RGD
Celera1014,505,756 - 14,508,931 (+)RGD
Sequence:
RefSeq Acc Id: XM_039086539   ⟹   XP_038942467
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81015,333,996 - 15,346,253 (+)NCBI
mRatBN7.21014,829,454 - 14,841,739 (+)NCBI
RefSeq Acc Id: XM_039086540   ⟹   XP_038942468
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81015,333,998 - 15,346,253 (+)NCBI
mRatBN7.21014,829,453 - 14,841,739 (+)NCBI
RefSeq Acc Id: XM_063269580   ⟹   XP_063125650
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81015,333,999 - 15,346,253 (+)NCBI
RefSeq Acc Id: NP_001009504   ⟸   NM_001009504
- UniProtKB: Q5MJ12 (UniProtKB/Swiss-Prot),   A6HD57 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000035846   ⟸   ENSRNOT00000039777
RefSeq Acc Id: XP_038942468   ⟸   XM_039086540
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038942467   ⟸   XM_039086539
- Peptide Label: isoform X1
RefSeq Acc Id: XP_063125650   ⟸   XM_063269580
- Peptide Label: isoform X2
- UniProtKB: Q5MJ12 (UniProtKB/Swiss-Prot),   A6HD57 (UniProtKB/TrEMBL)
Ensembl Acc Id: ENSRNOP00000102449   ⟸   ENSRNOT00000157201
Protein Domains
F-box

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q5MJ12-F1-model_v2 AlphaFold Q5MJ12 1-479 view protein structure

Transcriptome

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


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1309127 AgrOrtholog
BioCyc Gene G2FUF-25754 BioCyc
Ensembl Genes ENSRNOG00000022248 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000039777 ENTREZGENE
  ENSRNOT00000039777.2 UniProtKB/Swiss-Prot
  ENSRNOT00000157201 ENTREZGENE
Gene3D-CATH 3.80.10.10 UniProtKB/Swiss-Prot
InterPro F-box-like_dom_sf UniProtKB/Swiss-Prot
  F-box_LRR-repeat UniProtKB/Swiss-Prot
  Leu-rich_rpt UniProtKB/Swiss-Prot
  Leu-rich_rpt_Cys-con_subtyp UniProtKB/Swiss-Prot
  LRR_dom_sf UniProtKB/Swiss-Prot
KEGG Report rno:494223 UniProtKB/Swiss-Prot
NCBI Gene Fbxl16 ENTREZGENE
PANTHER MITOCHONDRIAL ATP SYNTHASE COUPLING FACTOR B UniProtKB/Swiss-Prot
Pfam LRR_6 UniProtKB/Swiss-Prot
PhenoGen Fbxl16 PhenoGen
RatGTEx ENSRNOG00000022248 RatGTEx
SMART LRR_CC UniProtKB/Swiss-Prot
Superfamily-SCOP RNI-like UniProtKB/Swiss-Prot
  SSF81383 UniProtKB/Swiss-Prot
UniProt A0ABK0LLD8_RAT UniProtKB/TrEMBL
  A6HD57 ENTREZGENE, UniProtKB/TrEMBL
  FXL16_RAT UniProtKB/Swiss-Prot, ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2007-02-20 Fbxl16  F-box and leucine-rich repeat protein 16  Fbxl16_predicted  F-box and leucine-rich repeat protein 16 (predicted)  Symbol and Name updated 1299863 PENDING
2007-02-12 Fbxl16_predicted  F-box and leucine-rich repeat protein 16 (predicted)  Fbxl16  F-box and leucine-rich repeat protein 16  Data merged from RGD:1359543 737654 APPROVED
2005-07-29 Fbxl16  F-box and leucine-rich repeat protein 16      Symbol and Name status set to provisional 70820 PROVISIONAL
2005-01-12 Fbxl16_predicted  F-box and leucine-rich repeat protein 16 (predicted)      Symbol and Name status set to approved 70820 APPROVED