Farp1 (FERM, ARH/RhoGEF and pleckstrin domain protein 1) - Rat Genome Database

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Gene: Farp1 (FERM, ARH/RhoGEF and pleckstrin domain protein 1) Rattus norvegicus
Analyze
Symbol: Farp1
Name: FERM, ARH/RhoGEF and pleckstrin domain protein 1
RGD ID: 1305346
Description: Enables guanyl-nucleotide exchange factor activity and small GTPase binding activity. Involved in several processes, including dendrite morphogenesis; retrograde trans-synaptic signaling by trans-synaptic protein complex; and synapse organization. Located in cytosol and dendrite. Is extrinsic component of cytoplasmic side of plasma membrane. Is active in glutamatergic synapse. Is extrinsic component of postsynaptic membrane. Orthologous to human FARP1 (FERM, ARH/RhoGEF and pleckstrin domain protein 1); INTERACTS WITH 17beta-estradiol; 3-chloropropane-1,2-diol; 6-propyl-2-thiouracil.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: FERM, ARHGEF and pleckstrin domain-containing protein 1; FERM, RhoGEF (Arhgef) and pleckstrin domain protein 1 (chondrocyte-derived); FERM, RhoGEF and pleckstrin domain-containing protein 1; FERMRhoGEF (Arhgef) and pleckstrin domain protein 1-like; LOC306183
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
mRatBN7.21598,124,304 - 98,363,299 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1598,182,329 - 98,363,299 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx15102,114,666 - 102,296,077 (+)NCBIRnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.015103,216,836 - 103,397,759 (+)NCBIRnor_SHRSP
UTH_Rnor_WKY_Bbb_1.015100,143,970 - 100,325,367 (+)NCBIRnor_WKY
Rnor_6.015106,375,298 - 106,625,837 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl15106,434,177 - 106,625,837 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.015109,772,475 - 110,020,013 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.415106,171,848 - 106,253,441 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.115106,132,880 - 106,268,432 (+)NCBI
Celera1596,990,113 - 97,147,686 (+)NCBICelera
Cytogenetic Map15q24NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
1,2-dimethylhydrazine  (ISO)
17beta-estradiol  (EXP,ISO)
2,2',4,4'-Tetrabromodiphenyl ether  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (ISO)
3-chloropropane-1,2-diol  (EXP)
4,4'-diaminodiphenylmethane  (ISO)
4,4'-sulfonyldiphenol  (ISO)
4-hydroxyphenyl retinamide  (ISO)
6-propyl-2-thiouracil  (EXP)
afimoxifene  (ISO)
aflatoxin B1  (ISO)
Aflatoxin B2 alpha  (ISO)
aristolochic acid  (ISO)
arsenite(3-)  (ISO)
atrazine  (EXP)
benzo[a]pyrene  (ISO)
benzo[b]fluoranthene  (ISO)
benzo[e]pyrene  (ISO)
Benzo[ghi]perylene  (ISO)
bisphenol A  (EXP,ISO)
bisphenol F  (ISO)
Brodifacoum  (EXP)
butanal  (ISO)
C60 fullerene  (EXP)
cadmium dichloride  (ISO)
carbon nanotube  (ISO)
CGP 52608  (ISO)
chrysene  (ISO)
cobalt dichloride  (ISO)
copper atom  (EXP,ISO)
copper(0)  (EXP,ISO)
copper(II) sulfate  (ISO)
cyclosporin A  (ISO)
dicrotophos  (ISO)
disodium selenite  (ISO)
diuron  (EXP)
dorsomorphin  (ISO)
doxorubicin  (ISO)
elemental selenium  (ISO)
entinostat  (ISO)
epoxiconazole  (ISO)
ethanol  (ISO)
folic acid  (ISO)
fonofos  (ISO)
fulvestrant  (ISO)
genistein  (ISO)
glyphosate  (EXP)
hexamethylene diisocyanate  (ISO)
isoprenaline  (ISO)
ivermectin  (ISO)
menadione  (ISO)
methapyrilene  (ISO)
methyl methanesulfonate  (ISO)
methylmercury chloride  (ISO)
N,N-diethyl-m-toluamide  (EXP)
nickel atom  (ISO)
nickel sulfate  (ISO)
paracetamol  (EXP,ISO)
parathion  (ISO)
permethrin  (EXP)
phenobarbital  (ISO)
pregnenolone 16alpha-carbonitrile  (ISO)
quercetin  (ISO)
SB 431542  (ISO)
selenium atom  (ISO)
serpentine asbestos  (ISO)
silicon dioxide  (ISO)
sodium arsenite  (ISO)
Soman  (EXP)
sulforaphane  (ISO)
terbufos  (ISO)
tert-butyl hydroperoxide  (ISO)
tetraphene  (ISO)
thioacetamide  (EXP)
trichostatin A  (ISO)
trimellitic anhydride  (ISO)
triptonide  (ISO)
valproic acid  (EXP,ISO)
vinclozolin  (EXP)

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. The novel synaptogenic protein Farp1 links postsynaptic cytoskeletal dynamics and transsynaptic organization. Cheadle L and Biederer T, J Cell Biol. 2012 Dec 10;199(6):985-1001. doi: 10.1083/jcb.201205041. Epub 2012 Dec 3.
2. 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.
3. Rat ISS GO annotations from GOA human gene data--August 2006 GOA data from the GO Consortium
4. GOA pipeline RGD automated data pipeline
5. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
6. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:19389623   PMID:24899721  


Genomics

Comparative Map Data
Farp1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21598,124,304 - 98,363,299 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1598,182,329 - 98,363,299 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx15102,114,666 - 102,296,077 (+)NCBIRnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.015103,216,836 - 103,397,759 (+)NCBIRnor_SHRSP
UTH_Rnor_WKY_Bbb_1.015100,143,970 - 100,325,367 (+)NCBIRnor_WKY
Rnor_6.015106,375,298 - 106,625,837 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl15106,434,177 - 106,625,837 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.015109,772,475 - 110,020,013 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.415106,171,848 - 106,253,441 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.115106,132,880 - 106,268,432 (+)NCBI
Celera1596,990,113 - 97,147,686 (+)NCBICelera
Cytogenetic Map15q24NCBI
FARP1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381398,142,172 - 98,455,176 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p13 Ensembl1398,142,562 - 98,455,176 (+)EnsemblGRCh38hg38GRCh38
GRCh371398,794,843 - 99,107,430 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361397,593,435 - 97,900,024 (+)NCBINCBI36Build 36hg18NCBI36
Build 341397,593,434 - 97,900,022NCBI
Celera1379,642,528 - 79,949,414 (+)NCBICelera
Cytogenetic Map13q32.2NCBI
HuRef1379,393,341 - 79,700,014 (+)NCBIHuRef
CHM1_11398,765,676 - 99,072,533 (+)NCBICHM1_1
T2T-CHM13v2.01397,349,662 - 97,662,977 (+)NCBIT2T-CHM13v2.0
Farp1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm3914121,272,563 - 121,521,156 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl14121,272,612 - 121,521,156 (+)EnsemblGRCm39 Ensembl
GRCm3814121,035,168 - 121,283,744 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl14121,035,200 - 121,283,744 (+)EnsemblGRCm38mm10GRCm38
MGSCv3714121,434,796 - 121,682,948 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv3614120,237,254 - 120,420,973 (+)NCBIMGSCv36mm8
Celera14119,647,443 - 119,834,111 (+)NCBICelera
Cytogenetic Map14E5NCBI
Farp1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495540412,051,591 - 12,317,035 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495540412,050,225 - 12,316,842 (-)NCBIChiLan1.0ChiLan1.0
FARP1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.11398,452,203 - 98,762,514 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1398,522,235 - 98,761,085 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v01379,300,995 - 79,615,649 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
FARP1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12248,284,961 - 48,575,007 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2248,342,521 - 48,573,836 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2248,071,250 - 48,356,468 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.02248,731,985 - 49,017,180 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2248,732,020 - 49,017,177 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.12248,382,095 - 48,667,283 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02248,416,215 - 48,701,436 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02248,452,007 - 48,737,927 (+)NCBIUU_Cfam_GSD_1.0
Farp1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024404945183,796,523 - 184,060,923 (+)NCBIHiC_Itri_2
SpeTri2.0NW_00493647211,891,234 - 12,100,202 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
FARP1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1167,144,645 - 67,457,548 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11167,144,622 - 67,457,547 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21174,553,756 - 74,694,542 (+)NCBISscrofa10.2Sscrofa10.2susScr3
FARP1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1376,807,172 - 77,102,146 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl376,807,211 - 77,100,720 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366604633,286,663 - 33,585,234 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Farp1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462479312,592,574 - 12,796,155 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462479312,595,521 - 12,870,803 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Position Markers
D15Rat106  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21598,287,955 - 98,288,169 (+)MAPPERmRatBN7.2
Rnor_6.015106,550,444 - 106,550,657NCBIRnor6.0
Rnor_5.015109,944,744 - 109,944,957UniSTSRnor5.0
RGSC_v3.415106,177,703 - 106,177,917RGDRGSC3.4
RGSC_v3.415106,177,704 - 106,177,917UniSTSRGSC3.4
RGSC_v3.115106,193,484 - 106,193,697RGD
Celera1597,072,390 - 97,072,603UniSTS
RH 3.4 Map15688.5RGD
RH 3.4 Map15688.5UniSTS
SHRSP x BN Map1565.3898UniSTS
SHRSP x BN Map1565.3898RGD
FHH x ACI Map1574.04RGD
Cytogenetic Map15q24-q25UniSTS
AW228844  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21598,362,898 - 98,362,996 (+)MAPPERmRatBN7.2
Rnor_6.015106,625,437 - 106,625,534NCBIRnor6.0
Rnor_5.015110,019,613 - 110,019,710UniSTSRnor5.0
RGSC_v3.415106,253,041 - 106,253,138UniSTSRGSC3.4
Celera1597,147,286 - 97,147,383UniSTS
Cytogenetic Map15q24-q25UniSTS
BE116755  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21598,307,851 - 98,308,028 (+)MAPPERmRatBN7.2
Rnor_6.015106,570,339 - 106,570,515NCBIRnor6.0
Rnor_5.015109,964,515 - 109,964,691UniSTSRnor5.0
RGSC_v3.415106,198,014 - 106,198,190UniSTSRGSC3.4
Celera1597,092,171 - 97,092,347UniSTS
RH 3.4 Map15691.5UniSTS
Cytogenetic Map15q24-q25UniSTS
RH138289  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21598,329,592 - 98,329,768 (+)MAPPERmRatBN7.2
Rnor_6.015106,592,079 - 106,592,254NCBIRnor6.0
Rnor_5.015109,986,255 - 109,986,430UniSTSRnor5.0
RGSC_v3.415106,219,753 - 106,219,928UniSTSRGSC3.4
Celera1597,113,923 - 97,114,098UniSTS
RH 3.4 Map15690.3UniSTS
Cytogenetic Map15q24-q25UniSTS
RH139121  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21598,327,184 - 98,327,340 (+)MAPPERmRatBN7.2
Rnor_6.015106,589,670 - 106,589,825NCBIRnor6.0
Rnor_5.015109,983,846 - 109,984,001UniSTSRnor5.0
RGSC_v3.415106,217,345 - 106,217,500UniSTSRGSC3.4
Celera1597,111,515 - 97,111,670UniSTS
RH 3.4 Map15690.21UniSTS
Cytogenetic Map15q24-q25UniSTS
RH139138  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21598,330,204 - 98,330,453 (+)MAPPERmRatBN7.2
Rnor_6.015106,592,691 - 106,592,939NCBIRnor6.0
Rnor_5.015109,986,867 - 109,987,115UniSTSRnor5.0
RGSC_v3.415106,220,365 - 106,220,613UniSTSRGSC3.4
Celera1597,114,535 - 97,114,783UniSTS
RH 3.4 Map15738.99UniSTS
Cytogenetic Map15q24-q25UniSTS
RH141737  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21598,362,040 - 98,362,222 (+)MAPPERmRatBN7.2
Rnor_6.015106,624,579 - 106,624,760NCBIRnor6.0
Rnor_5.015110,018,755 - 110,018,936UniSTSRnor5.0
RGSC_v3.415106,252,183 - 106,252,364UniSTSRGSC3.4
Celera1597,146,428 - 97,146,609UniSTS
RH 3.4 Map15691.3UniSTS
Cytogenetic Map15q24-q25UniSTS
AI229437  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21598,215,978 - 98,216,160 (+)MAPPERmRatBN7.2
Rnor_6.015106,468,712 - 106,468,893NCBIRnor6.0
Rnor_5.015109,863,239 - 109,863,420UniSTSRnor5.0
Celera1597,023,167 - 97,023,348UniSTS
RH 3.4 Map15689.0UniSTS
Cytogenetic Map15q24-q25UniSTS
BE107531  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21598,240,781 - 98,240,931 (+)MAPPERmRatBN7.2
Rnor_6.015106,493,387 - 106,493,536NCBIRnor6.0
Rnor_5.015109,887,914 - 109,888,063UniSTSRnor5.0
Celera1597,047,967 - 97,048,116UniSTS
RH 3.4 Map15690.9UniSTS
Cytogenetic Map15q24-q25UniSTS


QTLs in Region (mRatBN7.2)
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)152280624098288169Rat
1578647Bmd17Bone mineral density QTL 174femur mineral mass (VT:0010011)total volumetric bone mineral density (CMO:0001728)152280624098288169Rat
1578660Bss19Bone structure and strength QTL 194.3femur morphology trait (VT:0000559)bone trabecular cross-sectional area (CMO:0002311)152280624098288169Rat
1300144Rf23Renal function QTL 233.61renal blood flow trait (VT:2000006)absolute change in renal vascular resistance (CMO:0001900)154063126898288169Rat
1576315Schws6Schwannoma susceptibility QTL 60.0069nervous system integrity trait (VT:0010566)post-insult time of death (CMO:0002005)155380615298806152Rat
631655Bp126Blood pressure QTL 1264arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1558156477101769107Rat
731177Uae26Urinary albumin excretion QTL 262.40.025urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)1567588667101769107Rat
2300326Plaw1Placental weight QTL 1150.005placenta mass (VT:0004257)placenta wet weight (CMO:0002088)1568327165100062518Rat
1641889Colcr6Colorectal carcinoma resistance QTL 62.90.0126intestine integrity trait (VT:0010554)benign colorectal tumor surface area measurement (CMO:0001799)157369051899794247Rat
2317055Aia10Adjuvant induced arthritis QTL 103.41joint integrity trait (VT:0010548)left rear ankle joint diameter (CMO:0002149)1575788062101769107Rat
1549844Bss7Bone structure and strength QTL 76.4femur strength trait (VT:0010010)femur midshaft polar moment of inertia (CMO:0001669)1575788062101769107Rat
70155Gcs1Gastric cancer susceptibility QTL13.8stomach morphology trait (VT:0000470)stomach tumor susceptibility score (CMO:0002043)1576306099101769107Rat
1300118Bp190Blood pressure QTL 1902.94arterial blood pressure trait (VT:2000000)blood pressure measurement (CMO:0000003)158226252098288169Rat
1300120Kidm7Kidney mass QTL 73.55kidney mass (VT:0002707)left kidney wet weight to body weight ratio (CMO:0001954)158226252098288169Rat
1358354Srcrt5Stress Responsive Cort QTL 53.38blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)159815000199043291Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:217
Count of miRNA genes:152
Interacting mature miRNAs:191
Transcripts:ENSRNOT00000015271
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.


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 26 20 12 12 1 4 73 32 32 11 1
Low 17 37 29 19 29 7 7 1 3 7 7
Below cutoff 2

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000015271   ⟹   ENSRNOP00000015271
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1598,182,329 - 98,363,299 (+)Ensembl
Rnor_6.0 Ensembl15106,434,177 - 106,625,837 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000098108   ⟹   ENSRNOP00000080871
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1598,182,329 - 98,363,299 (+)Ensembl
RefSeq Acc Id: NM_001107287   ⟹   NP_001100757
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21598,182,329 - 98,363,299 (+)NCBI
Rnor_6.015106,434,177 - 106,625,837 (+)NCBI
Rnor_5.015109,772,475 - 110,020,013 (+)NCBI
RGSC_v3.415106,171,848 - 106,253,441 (+)RGD
Celera1596,990,113 - 97,147,686 (+)RGD
Sequence:
RefSeq Acc Id: XM_006252472   ⟹   XP_006252534
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21598,124,973 - 98,363,298 (+)NCBI
Rnor_6.015106,376,421 - 106,625,836 (+)NCBI
Rnor_5.015109,772,475 - 110,020,013 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006252475   ⟹   XP_006252537
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21598,124,973 - 98,363,298 (+)NCBI
Rnor_6.015106,376,421 - 106,625,836 (+)NCBI
Rnor_5.015109,772,475 - 110,020,013 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017599720   ⟹   XP_017455209
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21598,124,304 - 98,363,298 (+)NCBI
Rnor_6.015106,375,298 - 106,625,836 (+)NCBI
Sequence:
Protein Sequences
Protein RefSeqs NP_001100757 (Get FASTA)   NCBI Sequence Viewer  
  XP_006252534 (Get FASTA)   NCBI Sequence Viewer  
  XP_006252537 (Get FASTA)   NCBI Sequence Viewer  
  XP_017455209 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein EDM02559 (Get FASTA)   NCBI Sequence Viewer  
  F1LYQ8 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: NP_001100757   ⟸   NM_001107287
- UniProtKB: F1LYQ8 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_006252534   ⟸   XM_006252472
- Peptide Label: isoform X1
- UniProtKB: F1LYQ8 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_006252537   ⟸   XM_006252475
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: XP_017455209   ⟸   XM_017599720
- Peptide Label: isoform X1
- UniProtKB: F1LYQ8 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: ENSRNOP00000015271   ⟸   ENSRNOT00000015271
RefSeq Acc Id: ENSRNOP00000080871   ⟸   ENSRNOT00000098108
Protein Domains
DH   FERM   PH

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-F1LYQ8-F1-model_v2 AlphaFold F1LYQ8 1-1049 view protein structure

Transcriptome

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


Strain Variation

Strain Sequence Variants (mRatBN7.2)
ACI/EurMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
ACI/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN-Lx/CubMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/NHsdMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/NHsdMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/SsN (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BUF/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BXH2/CubMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BXH3/CubMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
DA/OlaHsd (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/DuCrl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/NCrl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/Stm (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FHH/EurMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FXLE16/Stm (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FXLE18/Stm (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
GK/FarMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB10/IpcvMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB2/IpcvMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB20/IpcvMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB31/IpcvMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB4/IpcvMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LE/Stm (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEW/Crl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF10A/StmMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF11/Stm (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF1A/Stm (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF1C/Stm (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF2B/Stm (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF3/Stm (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF4/Stm (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LH/MavRrrcAek (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LL/MavRrrcAek (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LN/MavRrrcAek (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
M520/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
M520/NRrrcMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
MR/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
MWF/Hsd (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
PVG/Seac (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SHR/OlalpcvMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SHRSP/A3NCrl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SR/JrHsd (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SS/JrHsdMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WAG/RijCrl (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/NCrl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WN/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1305346 AgrOrtholog
BioCyc Gene G2FUF-12380 BioCyc
Ensembl Genes ENSRNOG00000011203 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000015271 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSRNOP00000080871.1 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000015271 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSRNOT00000098108.1 UniProtKB/TrEMBL
Gene3D-CATH 1.20.80.10 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  1.20.900.10 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  2.30.29.30 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
InterPro Band_41_domain UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  DBL_dom_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  DH-domain UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Ez/rad/moesin-like UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  FARP1/FARP2/FRMD7_FERM_C UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  FERM-adjacent UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  FERM/acyl-CoA-bd_prot_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  FERM_2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  FERM_central UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  FERM_CS UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  FERM_domain UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  FERM_N UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  FERM_PH-like_C UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PH-like_dom_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PH_domain UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Ubiquitin-like_domsf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:306183 UniProtKB/Swiss-Prot
NCBI Gene 306183 ENTREZGENE
Pfam FERM_C UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  FERM_M UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  FERM_N UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PF00169 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PF08736 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  RhoGEF UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Farp1 PhenoGen
PRINTS BAND41 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  ERMFAMILY UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PROSITE DH_2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  FERM_1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  FERM_3 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PH_DOMAIN UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
SMART B41 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  FERM_C UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  RhoGEF UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SM00233 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SM01195 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF47031 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SSF48065 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SSF54236 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt A0A8I5ZQU0_RAT UniProtKB/TrEMBL
  F1LYQ8 ENTREZGENE, UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2015-11-19 Farp1  FERM, ARH/RhoGEF and pleckstrin domain protein 1  Farp1  FERM, RhoGEF (Arhgef) and pleckstrin domain protein 1 (chondrocyte-derived)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2013-05-24 Farp1  FERM, RhoGEF (Arhgef) and pleckstrin domain protein 1 (chondrocyte-derived)  LOC100361560  FERMRhoGEF (Arhgef) and pleckstrin domain protein 1-like  Data Merged 1643240 APPROVED
2010-05-05 LOC100361560  FERMRhoGEF (Arhgef) and pleckstrin domain protein 1-like      Symbol and Name status set to provisional 70820 PROVISIONAL
2008-04-30 Farp1  FERM, RhoGEF (Arhgef) and pleckstrin domain protein 1 (chondrocyte-derived)   Farp1_predicted  FERM, RhoGEF (Arhgef) and pleckstrin domain protein 1 (chondrocyte-derived) (predicted)  'predicted' is removed 2292626 APPROVED
2005-01-12 Farp1_predicted  FERM, RhoGEF (Arhgef) and pleckstrin domain protein 1 (chondrocyte-derived) (predicted)      Symbol and Name status set to approved 70820 APPROVED