Fbxl3 (F-box and leucine-rich repeat protein 3) - Rat Genome Database

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Gene: Fbxl3 (F-box and leucine-rich repeat protein 3) Rattus norvegicus
Analyze
Symbol: Fbxl3
Name: F-box and leucine-rich repeat protein 3
RGD ID: 1305660
Description: Is predicted to contribute to ubiquitin-protein transferase activity. Predicted to be involved in several processes, including cellular protein metabolic process; entrainment of circadian clock by photoperiod; and protein destabilization. Predicted to localize to SCF ubiquitin ligase complex; cytosol; and nuclear body. Orthologous to human FBXL3 (F-box and leucine rich repeat protein 3); INTERACTS WITH 2,4-dinitrotoluene; 2,6-dinitrotoluene; bisphenol A.
Type: protein-coding
RefSeq Status: VALIDATED
Also known as: F-box and leucine-rich repeat protein 3a; F-box/LRR-repeat protein 3; Fbxl3a; LOC306129
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: Rnor_6.0 - RGSC Genome Assembly v6.0
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21579,906,795 - 79,926,678 (-)NCBI
Rnor_6.0 Ensembl1593,647,310 - 93,667,395 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.01593,647,307 - 93,667,395 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01597,135,100 - 97,155,065 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41587,093,141 - 87,113,003 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11587,110,759 - 87,128,783 (-)NCBI
Celera1579,046,955 - 79,066,741 (-)NCBICelera
Cytogenetic Map15q23NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component
cytosol  (IBA,ISO)
nuclear body  (IEA,ISO)
nucleus  (IBA,ISO)
SCF ubiquitin ligase complex  (IBA,ISO)

Molecular Function

References

Additional References at PubMed
PMID:12477932   PMID:17462724   PMID:17463251   PMID:17463252   PMID:19028597   PMID:23452855   PMID:23452856   PMID:23616524   PMID:26776516  


Genomics

Comparative Map Data
Fbxl3
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21579,906,795 - 79,926,678 (-)NCBI
Rnor_6.0 Ensembl1593,647,310 - 93,667,395 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.01593,647,307 - 93,667,395 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01597,135,100 - 97,155,065 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41587,093,141 - 87,113,003 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11587,110,759 - 87,128,783 (-)NCBI
Celera1579,046,955 - 79,066,741 (-)NCBICelera
Cytogenetic Map15q23NCBI
FBXL3
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl1376,992,598 - 77,027,195 (-)EnsemblGRCh38hg38GRCh38
GRCh381376,992,597 - 77,027,164 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh371377,579,395 - 77,601,294 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361376,477,397 - 76,499,258 (-)NCBINCBI36hg18NCBI36
Build 341376,477,396 - 76,499,258NCBI
Celera1358,477,376 - 58,499,318 (-)NCBI
Cytogenetic Map13q22.3NCBI
HuRef1358,277,088 - 58,299,043 (-)NCBIHuRef
CHM1_11377,547,295 - 77,569,223 (-)NCBICHM1_1
Fbxl3
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm3914103,317,675 - 103,337,036 (-)NCBIGRCm39mm39
GRCm39 Ensembl14103,317,675 - 103,337,002 (-)Ensembl
GRCm3814103,080,239 - 103,099,566 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl14103,080,239 - 103,099,566 (-)EnsemblGRCm38mm10GRCm38
MGSCv3714103,479,456 - 103,498,726 (-)NCBIGRCm37mm9NCBIm37
MGSCv3614101,967,535 - 101,986,017 (-)NCBImm8
Celera14101,708,112 - 101,723,414 (-)NCBICelera
Cytogenetic Map14E2.3NCBI
Fbxl3
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495540430,215,108 - 30,229,798 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495540430,215,140 - 30,229,798 (+)NCBIChiLan1.0ChiLan1.0
FBXL3
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.11377,266,496 - 77,283,651 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1377,266,496 - 77,283,651 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v01358,219,260 - 58,244,780 (-)NCBIMhudiblu_PPA_v0panPan3
FBXL3
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12230,579,598 - 30,598,879 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2230,581,474 - 30,598,886 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2230,440,696 - 30,459,977 (-)NCBI
ROS_Cfam_1.02230,891,689 - 30,910,990 (-)NCBI
UMICH_Zoey_3.12230,559,157 - 30,578,437 (-)NCBI
UNSW_CanFamBas_1.02230,597,466 - 30,616,743 (-)NCBI
UU_Cfam_GSD_1.02230,666,969 - 30,686,249 (-)NCBI
Fbxl3
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024404945128,841,836 - 128,863,274 (+)NCBI
SpeTri2.0NW_0049365114,259,066 - 4,280,501 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
FBXL3
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1149,130,182 - 49,151,009 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11149,131,663 - 49,151,380 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21153,769,579 - 53,788,895 (-)NCBISscrofa10.2Sscrofa10.2susScr3
FBXL3
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1356,089,147 - 56,111,472 (-)NCBI
ChlSab1.1 Ensembl356,088,938 - 56,105,977 (-)Ensembl
Vero_WHO_p1.0NW_02366604612,297,829 - 12,320,027 (-)NCBI
Fbxl3
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462475123,374,622 - 23,391,535 (+)NCBI

Position Markers
RH131875  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21579,908,673 - 79,908,876 (+)MAPPER
Rnor_6.01593,649,382 - 93,649,584NCBIRnor6.0
Rnor_5.01597,137,175 - 97,137,377UniSTSRnor5.0
RGSC_v3.41587,095,020 - 87,095,222UniSTSRGSC3.4
Celera1579,048,834 - 79,049,036UniSTS
RH 3.4 Map15536.2UniSTS
Cytogenetic Map15q22UniSTS
RH134429  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21579,907,054 - 79,907,271 (+)MAPPER
Rnor_6.01593,647,763 - 93,647,979NCBIRnor6.0
Rnor_5.01597,135,556 - 97,135,772UniSTSRnor5.0
RGSC_v3.41587,093,401 - 87,093,617UniSTSRGSC3.4
Celera1579,047,215 - 79,047,431UniSTS
RH 3.4 Map15547.6UniSTS
Cytogenetic Map15q22UniSTS
BE109190  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21579,927,400 - 79,927,564 (+)MAPPER
Rnor_6.01593,668,118 - 93,668,281NCBIRnor6.0
Rnor_5.01597,155,788 - 97,155,951UniSTSRnor5.0
RGSC_v3.41587,113,726 - 87,113,889UniSTSRGSC3.4
Celera1579,067,464 - 79,067,627UniSTS
RH 3.4 Map15498.71UniSTS
Cytogenetic Map15q22UniSTS
RH140351  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21579,927,731 - 79,927,888 (+)MAPPER
Rnor_6.01593,668,449 - 93,668,605NCBIRnor6.0
Rnor_5.01597,156,119 - 97,156,275UniSTSRnor5.0
RGSC_v3.41587,114,057 - 87,114,213UniSTSRGSC3.4
Celera1579,067,795 - 79,067,951UniSTS
RH 3.4 Map15547.4UniSTS
Cytogenetic Map15q22UniSTS
AI178492  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21579,906,487 - 79,906,674 (+)MAPPER
Rnor_6.01593,647,196 - 93,647,382NCBIRnor6.0
Rnor_5.01597,134,989 - 97,135,175UniSTSRnor5.0
RGSC_v3.41587,092,834 - 87,093,020UniSTSRGSC3.4
Celera1579,046,648 - 79,046,834UniSTS
RH 3.4 Map15499.01UniSTS
Cytogenetic Map15q22UniSTS
AI009239  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21579,909,524 - 79,909,744 (+)MAPPER
Rnor_6.01593,650,233 - 93,650,452NCBIRnor6.0
Rnor_5.01597,138,026 - 97,138,245UniSTSRnor5.0
RGSC_v3.41587,095,871 - 87,096,090UniSTSRGSC3.4
Celera1579,049,685 - 79,049,904UniSTS
RH 3.4 Map15520.19UniSTS
Cytogenetic Map15q22UniSTS


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1578646Bmd18Bone mineral density QTL 185.2femur mineral mass (VT:0010011)trabecular volumetric bone mineral density (CMO:0001729)1526381041106550657Rat
1578647Bmd17Bone mineral density QTL 174femur mineral mass (VT:0010011)total volumetric bone mineral density (CMO:0001728)1526381041106550657Rat
1578660Bss19Bone structure and strength QTL 194.3femur morphology trait (VT:0000559)bone trabecular cross-sectional area (CMO:0002311)1526381041106550657Rat
1300144Rf23Renal function QTL 233.61renal blood flow trait (VT:2000006)absolute change in renal vascular resistance (CMO:0001900)1543097470106550657Rat
1576315Schws6Schwannoma susceptibility QTL 60.0069nervous system integrity trait (VT:0010566)post-insult time of death (CMO:0002005)1561447766106447766Rat
61477Aia4Adjuvant induced arthritis QTL 43joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)156259641099372139Rat
631516Gluco31Glucose level QTL 317blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)1562596410103164962Rat
631655Bp126Blood pressure QTL 1264arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1565520564110520564Rat
731177Uae26Urinary albumin excretion QTL 262.40.025urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)1575527634111246239Rat
2300326Plaw1Placental weight QTL 1150.005placenta mass (VT:0004257)placenta wet weight (CMO:0002088)1575761024109400896Rat
1331724Bp223Blood pressure QTL 2233.53715arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1581255292103165069Rat
1641889Colcr6Colorectal carcinoma resistance QTL 62.90.0126intestine integrity trait (VT:0010554)benign colorectal tumor surface area measurement (CMO:0001799)1581255292109133904Rat
70182BpQTLcluster12Blood pressure QTL cluster 123.53arterial blood pressure trait (VT:2000000)absolute change in mean arterial blood pressure (CMO:0000533)1581255430103164962Rat
1581555Eae19Experimental allergic encephalomyelitis QTL 194.7nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis severity score (CMO:0001419)158394771498027710Rat
70155Gcs1Gastric cancer susceptibility QTL13.8stomach morphology trait (VT:0000470)stomach tumor susceptibility score (CMO:0002043)1583947714111246239Rat
1549844Bss7Bone structure and strength QTL 76.4femur strength trait (VT:0010010)femur midshaft polar moment of inertia (CMO:0001669)1584050550111246239Rat
2317055Aia10Adjuvant induced arthritis QTL 103.41joint integrity trait (VT:0010548)left rear ankle joint diameter (CMO:0002149)1584050550111246239Rat
1300118Bp190Blood pressure QTL 1902.94arterial blood pressure trait (VT:2000000)blood pressure measurement (CMO:0000003)1589640684106550657Rat
1300120Kidm7Kidney mass QTL 73.55kidney mass (VT:0002707)left kidney wet weight to body weight ratio (CMO:0001954)1589640684106550657Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:700
Count of miRNA genes:302
Interacting mature miRNAs:396
Transcripts:ENSRNOT00000057789
Prediction methods:Microtar, Miranda, 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.


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 43 38 22 19 22 8 11 74 35 38 11 8
Low 19 19 19 3
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000089876   ⟹   ENSRNOP00000071266
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1593,647,503 - 93,667,395 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000093184   ⟹   ENSRNOP00000076303
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1593,656,743 - 93,667,116 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000093568
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1593,649,686 - 93,656,985 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000093571   ⟹   ENSRNOP00000076079
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1593,647,310 - 93,667,355 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000093603   ⟹   ENSRNOP00000076144
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1593,649,250 - 93,666,808 (-)Ensembl
RefSeq Acc Id: NM_001100568   ⟹   NP_001094038
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21579,906,795 - 79,926,678 (-)NCBI
Rnor_6.01593,647,503 - 93,667,395 (-)NCBI
Rnor_5.01597,135,100 - 97,155,065 (-)NCBI
RGSC_v3.41587,093,141 - 87,113,003 (-)RGD
Celera1579,046,955 - 79,066,741 (-)RGD
Sequence:
RefSeq Acc Id: XM_006252442   ⟹   XP_006252504
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21579,906,795 - 79,926,128 (-)NCBI
Rnor_6.01593,647,307 - 93,667,074 (-)NCBI
Rnor_5.01597,135,100 - 97,155,065 (-)NCBI
Sequence:
RefSeq Acc Id: XM_039093401   ⟹   XP_038949329
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21579,906,795 - 79,926,482 (-)NCBI
RefSeq Acc Id: XM_039093402   ⟹   XP_038949330
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21579,906,795 - 79,926,482 (-)NCBI
Reference Sequences
RefSeq Acc Id: NP_001094038   ⟸   NM_001100568
- UniProtKB: G3V9P4 (UniProtKB/TrEMBL),   Q562A1 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006252504   ⟸   XM_006252442
- Peptide Label: isoform X1
- UniProtKB: G3V9P4 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000071266   ⟸   ENSRNOT00000089876
RefSeq Acc Id: ENSRNOP00000076144   ⟸   ENSRNOT00000093603
RefSeq Acc Id: ENSRNOP00000076079   ⟸   ENSRNOT00000093571
RefSeq Acc Id: ENSRNOP00000076303   ⟸   ENSRNOT00000093184
RefSeq Acc Id: XP_038949330   ⟸   XM_039093402
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038949329   ⟸   XM_039093401
- Peptide Label: isoform X1
Protein Domains
F-box

Transcriptome

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

Promoters
RGD ID:13699868
Promoter ID:EPDNEW_R10392
Type:multiple initiation site
Name:Fbxl3_1
Description:F-box and leucine-rich repeat protein 3
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_6.01593,667,406 - 93,667,466EPDNEW

Strain Variation

Strain Sequence Variants (Rnor 6.0)
ACI/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
ACI/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
ACI/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
BBDP/Wor (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
BN/SsN (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
Buf/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
COP/CrCrl (MCW & UW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
University of Wisconsin (Dr. James Shull)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Charles River Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob) and UW Madison (Dr. James Shull)
F344/NCrl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
F344/NRrrc (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
FHH/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHH/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
FHL/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHL/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
GH/OmrMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
GK/Ox (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LE/Stm (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/Crl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/NCrlBR (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LH/MavRrrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LL/MavRrrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LN/MavRrrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
M520/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
MHS/Gib (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MNS/Gib (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MR/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
SBH/Ygl (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBH/Ygl sequenced by MCW
SBH/Ygl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SBN/Ygl (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBN/Ygl sequenced by MCW
SBN/Ygl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHR/NHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHRSP/Gcrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SR/JrHsd (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Harlan Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SR/JrHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/Jr (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/JrHsdMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SS/JrHsdMcwi (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WAG/Rij (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/Gcrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
WKY/NCrl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/NHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WN/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
Damaging Variants


Assembly: RGSC_v3.4

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
15 87095447 87095448 T C snv FHL/EurMcwi (MCW)


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1305660 AgrOrtholog
Ensembl Genes ENSRNOG00000059334 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000071266 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOP00000076079 UniProtKB/TrEMBL
  ENSRNOP00000076144 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOP00000076303 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000089876 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOT00000093184 UniProtKB/TrEMBL
  ENSRNOT00000093571 UniProtKB/TrEMBL
  ENSRNOT00000093603 UniProtKB/TrEMBL
Gene3D-CATH 3.80.10.10 UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7319310 IMAGE-MGC_LOAD
InterPro F-box_dom_cyclin-like UniProtKB/TrEMBL
  F-box_dom_like UniProtKB/TrEMBL
  L_dom-like UniProtKB/TrEMBL
KEGG Report rno:306129 UniProtKB/TrEMBL
MGC_CLONE MGC:109427 IMAGE-MGC_LOAD
NCBI Gene 306129 ENTREZGENE
Pfam F-box UniProtKB/TrEMBL
PhenoGen Fbxl3 PhenoGen
SMART FBOX UniProtKB/TrEMBL
Superfamily-SCOP F-box_dom_Skp2-like UniProtKB/TrEMBL
UniProt A0A1W2Q601_RAT UniProtKB/TrEMBL
  A0A1W2Q6K2_RAT UniProtKB/TrEMBL
  G3V9P4 ENTREZGENE, UniProtKB/TrEMBL
  Q562A1 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2006-03-30 Fbxl3  F-box and leucine-rich repeat protein 3  Fbxl3a  F-box and leucine-rich repeat protein 3a  Symbol and Name updated 1299863 APPROVED
2005-12-06 Fbxl3a  F-box and leucine-rich repeat protein 3a  Fbxl3a_predicted  F-box and leucine-rich repeat protein 3a (predicted)  Symbol and Name updated 1559027 APPROVED
2005-01-12 Fbxl3a_predicted  F-box and leucine-rich repeat protein 3a (predicted)      Symbol and Name status set to approved 70820 APPROVED