Focad (focadhesin) - Rat Genome Database

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Gene: Focad (focadhesin) Rattus norvegicus
Analyze
Symbol: Focad
Name: focadhesin
RGD ID: 1311849
Description: Predicted to be involved in regulation of post-transcriptional gene silencing. Predicted to be located in cytosol and focal adhesion. Orthologous to human FOCAD (focadhesin); INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; 6-propyl-2-thiouracil; acrylamide.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: Ir22; LOC313346; RGD1311849; similar to mKIAA1797 protein
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
GRCr85107,610,489 - 107,932,485 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl5107,610,416 - 107,933,109 (+)EnsemblGRCr8
mRatBN7.25102,564,560 - 102,886,587 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl5102,564,598 - 102,886,582 (+)EnsemblmRatBN7.2
Dahl_SR_JrHsd5107,566,679 - 107,888,941 (+)NCBIDahl_SR_JrHsd
Lyon_Normotensive5109,346,523 - 109,668,887 (+)NCBILyon_Normotensive
Lyon_Hypertensive5108,521,817 - 108,844,178 (+)NCBILyon_Hypertensive
F344_StmMcwi5102,289,222 - 102,611,521 (+)NCBIF344_StmMcwi
Rnor_6.05106,409,411 - 106,729,308 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl5106,409,456 - 106,730,684 (+)Ensemblrn6Rnor6.0
Rnor_5.05110,390,888 - 110,709,983 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.45107,467,537 - 107,704,012 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera5100,226,285 - 100,542,835 (-)NCBICelera
RGSC_v3.15107,360,765 - 107,708,917 (+)NCBI
Cytogenetic Map5q32NCBI
JBrowse:




Disease Annotations     Click to see Annotation Detail View

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component
cytosol  (IEA,ISO)
focal adhesion  (IEA,ISO)

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
2. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:17186380   PMID:22427331  


Genomics

Comparative Map Data
Focad
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr85107,610,489 - 107,932,485 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl5107,610,416 - 107,933,109 (+)EnsemblGRCr8
mRatBN7.25102,564,560 - 102,886,587 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl5102,564,598 - 102,886,582 (+)EnsemblmRatBN7.2
Dahl_SR_JrHsd5107,566,679 - 107,888,941 (+)NCBIDahl_SR_JrHsd
Lyon_Normotensive5109,346,523 - 109,668,887 (+)NCBILyon_Normotensive
Lyon_Hypertensive5108,521,817 - 108,844,178 (+)NCBILyon_Hypertensive
F344_StmMcwi5102,289,222 - 102,611,521 (+)NCBIF344_StmMcwi
Rnor_6.05106,409,411 - 106,729,308 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl5106,409,456 - 106,730,684 (+)Ensemblrn6Rnor6.0
Rnor_5.05110,390,888 - 110,709,983 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.45107,467,537 - 107,704,012 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera5100,226,285 - 100,542,835 (-)NCBICelera
RGSC_v3.15107,360,765 - 107,708,917 (+)NCBI
Cytogenetic Map5q32NCBI
FOCAD
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38920,655,625 - 20,995,950 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl920,658,305 - 20,996,161 (+)Ensemblhg38GRCh38
GRCh37920,658,308 - 20,995,949 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36920,648,309 - 20,985,954 (+)NCBIBuild 36Build 36hg18NCBI36
Build 34920,648,308 - 20,985,954NCBI
Celera920,596,817 - 20,934,232 (+)NCBICelera
Cytogenetic Map9p21.3NCBI
HuRef920,620,945 - 20,958,811 (+)NCBIHuRef
CHM1_1920,658,015 - 20,995,735 (+)NCBICHM1_1
T2T-CHM13v2.0920,669,421 - 21,009,826 (+)NCBIT2T-CHM13v2.0
Focad
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39488,012,858 - 88,329,248 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl488,012,866 - 88,329,248 (+)EnsemblGRCm39 EnsemblGRCm39
GRCm38488,094,620 - 88,411,011 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl488,094,629 - 88,411,011 (+)Ensemblmm10GRCm38
MGSCv37487,740,534 - 88,056,915 (+)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv36487,565,861 - 87,882,242 (+)NCBIMGSCv36mm8
Celera486,619,576 - 86,926,697 (+)NCBICelera
Cytogenetic Map4C4NCBI
cM Map441.4NCBI
Focad
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495543422,951,572 - 23,230,545 (+)Ensembl
ChiLan1.0NW_00495543422,951,571 - 23,230,790 (+)NCBIChiLan1.0ChiLan1.0
FOCAD
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v211103,551,838 - 103,876,936 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan19103,547,279 - 103,882,800 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0920,479,301 - 20,807,365 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1921,145,759 - 21,459,758 (+)NCBIPanPan1.1PanPan1.1panPan2
PanPan1.1 Ensembl921,169,176 - 21,459,758 (+)EnsemblpanPan2panpan1.1
FOCAD
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11140,265,717 - 40,577,816 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1140,265,640 - 40,577,591 (+)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_Tasha1138,928,212 - 39,240,145 (+)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.01141,207,527 - 41,519,558 (+)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1141,241,965 - 41,519,545 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.11139,898,503 - 40,211,709 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01139,681,955 - 40,000,022 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01140,322,038 - 40,635,712 (+)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
Focad
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024404947154,692,219 - 154,974,020 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049366522,361,735 - 2,643,694 (+)EnsemblSpeTri2.0 Ensembl
SpeTri2.0NW_0049366522,361,776 - 2,643,527 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
FOCAD
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1201,942,463 - 202,258,794 (-)EnsemblsusScr11Sscrofa11.1
Sscrofa11.11201,938,993 - 202,258,924 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21225,618,600 - 225,842,443 (-)NCBISscrofa10.2Sscrofa10.2susScr3
FOCAD
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1 Ensembl1258,784,775 - 59,063,513 (-)EnsemblChlSab1.1 EnsemblchlSab2Vervet-AGM
Focad
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462473624,675,545 - 24,999,585 (+)EnsemblHetGla_female_1.0 EnsemblhetGla2HetGla_female_1.0 Ensembl
HetGla 1.0NW_00462473624,635,453 - 24,999,908 (+)NCBIHetGla 1.0HetGla 1.0hetGla2
Focad
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v1165,716,770 - 66,012,767 (-)NCBIRrattus_CSIRO_v1

Variants

.
Variants in Focad
2543 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:181
Count of miRNA genes:130
Interacting mature miRNAs:139
Transcripts:ENSRNOT00000058387, ENSRNOT00000071791
Prediction methods:Microtar, 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
1331796Thshl2Thyroid stimulating hormone level QTL 22.3blood thyroid-stimulating hormone amount (VT:0005119)serum thyroid stimulating hormone level (CMO:0001248)5102105698152749382Rat
1357396Bw44Body weight QTL 444.19body mass (VT:0001259)body weight (CMO:0000012)573779642118779642Rat
2303586Gluco52Glucose level QTL 522blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)5100826632145826632Rat
1549845Scl44Serum cholesterol level QTL 446blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)544924861153890773Rat
70212Niddm25Non-insulin dependent diabetes mellitus QTL 253.54blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)538207390136631402Rat
1298070Scl18Serum cholesterol level QTL 183.7blood LDL cholesterol amount (VT:0000181)calculated plasma low density lipoprotein cholesterol level (CMO:0001245)584630798129630798Rat
61452Ciaa5CIA Autoantibody QTL 53.5blood autoantibody amount (VT:0003725)calculated serum anti-rat type 2 collagen autoantibody titer (CMO:0001281)599905133172190305Rat
1331801Rf33Renal function QTL 334.149kidney blood vessel physiology trait (VT:0100012)absolute change in renal vascular resistance (CMO:0001900)548523123134369373Rat
2302381Bw84Body weight QTL 844.47body mass (VT:0001259)body mass index (BMI) (CMO:0000105)573779642118779642Rat
1357402Bw46Body weight QTL 464.47body mass (VT:0001259)body mass index (BMI) (CMO:0000105)573779642118779642Rat
7411582Foco3Food consumption QTL 37.50.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)592583776137583776Rat
61393Bp7Blood pressure QTL 74.50.0001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)565089051166764498Rat
1598859Cm66Cardiac mass QTL 662heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)584630798129630798Rat
1578766Tcas11Tongue tumor susceptibility QTL 114.12tongue integrity trait (VT:0010553)number of squamous cell tumors of the tongue with diameter greater than 3 mm (CMO:0001950)551657967166600247Rat
1582212Livw2Liver weight QTL 23.50.0004liver mass (VT:0003402)liver weight to body weight ratio (CMO:0000633)5104018576124314782Rat
7411564Bw135Body weight QTL 1350.001body mass (VT:0001259)body weight gain (CMO:0000420)592583776137583776Rat
8657050Bw146Body weight QTL 14619.840.001body mass (VT:0001259)body weight gain (CMO:0000420)598972960143972960Rat
1576312Emca8Estrogen-induced mammary cancer QTL 84.1mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)555124766172190305Rat
7411601Foco12Food consumption QTL 1219.70.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)592583776137583776Rat
2303618Vencon1Ventilatory control QTL 13.8respiration trait (VT:0001943)oxygen consumption (CMO:0002169)5100826632145826632Rat
7394708Emca11Estrogen-induced mammary cancer QTL 11mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)573176602118176602Rat
1598846Bp293Blood pressure QTL 2933.9arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)584630798129630798Rat
7394710Emca12Estrogen-induced mammary cancer QTL 12mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)594034903139034903Rat
1578673Bmd13Bone mineral density QTL 134.9femur mineral mass (VT:0010011)trabecular volumetric bone mineral density (CMO:0001729)569474415114474415Rat
1358909Kidm25Kidney mass QTL 251.87kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)595062526133270832Rat
70189Mcs5Mammary carcinoma susceptibility QTL 510.51mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)560601597137492949Rat
1600362Mcs19Mammary carcinoma susceptibility QTL 192.5mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)582032155127032155Rat
1354598Srn6Serum renin concentration QTL 63.8blood renin amount (VT:0003349)plasma renin activity level (CMO:0000116)574335621156302135Rat
2290448Scl54Serum cholesterol level QTL 542.93blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)536460764136631402Rat
61426Scl2Serum cholesterol level QTL 27.30.001blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)564589016109589016Rat
1298086Bp156Blood pressure QTL 156arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)589369373134369373Rat
2290005Mcs24Mammary carcinoma susceptibility QTL 24mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)569835120114835120Rat
2306971Anxrr21Anxiety related response QTL 219.47fear/anxiety-related behavior trait (VT:1000241)number of entries into a discrete space in an experimental apparatus (CMO:0000960)570969494136328156Rat
1358895Bp254Blood pressure QTL 2543.60.0003arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)597492524133270832Rat
2312671Scl64Serum cholesterol level QTL 640.001blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)573779642118779642Rat
1358889Bp261Blood pressure QTL 2612.86arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)595062526133270832Rat
6903316Bw113Body weight QTL 11320.0103body mass (VT:0001259)body weight (CMO:0000012)592881678137881678Rat
1358187Emca1Estrogen-induced mammary cancer QTL 14.4mammary gland integrity trait (VT:0010552)post-insult time to mammary tumor formation (CMO:0000345)5104262817153890625Rat

Markers in Region
D5Rat152  
Rat AssemblyChrPosition (strand)SourceJBrowse
GRCr85107,862,689 - 107,862,915 (+)Marker Load Pipeline
mRatBN7.25102,816,790 - 102,817,014 (+)MAPPERmRatBN7.2
Rnor_6.05106,659,516 - 106,659,741NCBIRnor6.0
Rnor_5.05110,640,145 - 110,640,370UniSTSRnor5.0
RGSC_v3.45107,633,679 - 107,633,905RGDRGSC3.4
RGSC_v3.45107,633,680 - 107,633,905UniSTSRGSC3.4
Celera5100,295,253 - 100,295,478UniSTS
RGSC_v3.15107,638,741 - 107,639,150RGD
SHRSP x BN Map558.1599UniSTS
SHRSP x BN Map558.1599RGD
Cytogenetic Map5q32UniSTS
RH128262  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.25102,623,675 - 102,623,875 (+)MAPPERmRatBN7.2
mRatBN7.2177,589,281 - 77,589,472 (+)MAPPERmRatBN7.2
Rnor_6.0178,843,134 - 78,843,324NCBIRnor6.0
Rnor_6.05106,467,083 - 106,467,282NCBIRnor6.0
Rnor_5.0180,090,692 - 80,090,882UniSTSRnor5.0
Rnor_5.05110,448,523 - 110,448,722UniSTSRnor5.0
RGSC_v3.4177,244,223 - 77,244,413UniSTSRGSC3.4
Celera5100,486,767 - 100,486,966UniSTS
Celera172,074,596 - 72,074,786UniSTS
Cytogenetic Map5q32UniSTS
Cytogenetic Map1q22UniSTS
UniSTS:141218  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.25102,623,667 - 102,623,851 (+)MAPPERmRatBN7.2
mRatBN7.2177,589,273 - 77,589,448 (+)MAPPERmRatBN7.2
Rnor_6.0178,843,126 - 78,843,300NCBIRnor6.0
Rnor_6.05106,467,075 - 106,467,258NCBIRnor6.0
Rnor_5.0180,090,684 - 80,090,858UniSTSRnor5.0
Rnor_5.05110,448,515 - 110,448,698UniSTSRnor5.0
RGSC_v3.4177,244,215 - 77,244,389UniSTSRGSC3.4
Celera5100,486,791 - 100,486,974UniSTS
Celera172,074,588 - 72,074,762UniSTS
Cytogenetic Map5q32UniSTS
Cytogenetic Map1q22UniSTS
RH132480  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.25102,886,291 - 102,886,488 (+)MAPPERmRatBN7.2
Rnor_6.05106,729,018 - 106,729,214NCBIRnor6.0
Rnor_5.05110,709,688 - 110,709,884UniSTSRnor5.0
RGSC_v3.45107,703,717 - 107,703,913UniSTSRGSC3.4
Celera5100,226,384 - 100,226,580UniSTS
RH 3.4 Map5744.5UniSTS
Cytogenetic Map5q32UniSTS


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 67 165 91 90 59 92 59 6 356 192 11 144 81 92 31 17 17

Sequence


Ensembl Acc Id: ENSRNOT00000058387   ⟹   ENSRNOP00000055189
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl5107,610,476 - 107,932,478 (+)Ensembl
mRatBN7.2 Ensembl5102,564,598 - 102,886,582 (+)Ensembl
Rnor_6.0 Ensembl5106,409,456 - 106,730,684 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000106842   ⟹   ENSRNOP00000096319
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl5107,610,476 - 107,932,478 (+)Ensembl
mRatBN7.2 Ensembl5102,564,598 - 102,886,582 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000124761   ⟹   ENSRNOP00000103609
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl5107,610,476 - 107,933,109 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000150687   ⟹   ENSRNOP00000100626
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl5107,610,416 - 107,932,485 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000155547   ⟹   ENSRNOP00000109940
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl5107,680,827 - 107,932,485 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000173561   ⟹   ENSRNOP00000104359
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl5107,610,459 - 107,932,485 (+)Ensembl
RefSeq Acc Id: NM_001427695   ⟹   NP_001414624
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr85107,610,489 - 107,932,485 (+)NCBI
Dahl_SR_JrHsd5107,566,679 - 107,888,941 (+)NCBI
Lyon_Normotensive5109,346,523 - 109,668,887 (+)NCBI
Lyon_Hypertensive5108,521,817 - 108,844,178 (+)NCBI
F344_StmMcwi5102,289,222 - 102,611,521 (+)NCBI
RefSeq Acc Id: XM_017593754   ⟹   XP_017449243
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr85107,664,316 - 107,932,480 (+)NCBI
mRatBN7.25102,618,401 - 102,886,587 (+)NCBI
Rnor_6.05106,461,274 - 106,729,308 (+)NCBI
Sequence:
RefSeq Acc Id: XM_039111093   ⟹   XP_038967021
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr85107,664,262 - 107,932,480 (+)NCBI
mRatBN7.25102,618,334 - 102,886,587 (+)NCBI
RefSeq Acc Id: XM_039111095   ⟹   XP_038967023
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr85107,748,955 - 107,932,480 (+)NCBI
mRatBN7.25102,703,026 - 102,886,587 (+)NCBI
RefSeq Acc Id: XM_063287636   ⟹   XP_063143706
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr85107,703,270 - 107,932,480 (+)NCBI
RefSeq Acc Id: XP_017449243   ⟸   XM_017593754
- Peptide Label: isoform X1
- UniProtKB: A0A8I6AQM8 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000055189   ⟸   ENSRNOT00000058387
RefSeq Acc Id: XP_038967021   ⟸   XM_039111093
- Peptide Label: isoform X1
- UniProtKB: A0A8I6AQM8 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038967023   ⟸   XM_039111095
- Peptide Label: isoform X3
Ensembl Acc Id: ENSRNOP00000096319   ⟸   ENSRNOT00000106842
RefSeq Acc Id: NP_001414624   ⟸   NM_001427695
- UniProtKB: F1LU27 (UniProtKB/TrEMBL),   A0A8I6AQM8 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_063143706   ⟸   XM_063287636
- Peptide Label: isoform X2
- UniProtKB: A0A8I6AQM8 (UniProtKB/TrEMBL)
Ensembl Acc Id: ENSRNOP00000104359   ⟸   ENSRNOT00000173561
Ensembl Acc Id: ENSRNOP00000109940   ⟸   ENSRNOT00000155547
Ensembl Acc Id: ENSRNOP00000100626   ⟸   ENSRNOT00000150687
Ensembl Acc Id: ENSRNOP00000103609   ⟸   ENSRNOT00000124761
Protein Domains
DUF3730   Focadhesin C-terminal

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-F1LU27-F1-model_v2 AlphaFold F1LU27 1-1798 view protein structure

Transcriptome

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

Promoters
RGD ID:13693833
Promoter ID:EPDNEW_R4353
Type:initiation region
Name:Focad_1
Description:focadhesin
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_6.05106,409,462 - 106,409,522EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1311849 AgrOrtholog
BioCyc Gene G2FUF-40826 BioCyc
Ensembl Genes ENSRNOG00000024402 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000058387 ENTREZGENE
  ENSRNOT00000058387.6 UniProtKB/TrEMBL
  ENSRNOT00000106842.2 UniProtKB/TrEMBL
  ENSRNOT00000124761.1 UniProtKB/TrEMBL
  ENSRNOT00000150687.1 UniProtKB/TrEMBL
  ENSRNOT00000155547.1 UniProtKB/TrEMBL
  ENSRNOT00000173561 ENTREZGENE
  ENSRNOT00000173561.1 UniProtKB/TrEMBL
InterPro ARM-type_fold UniProtKB/TrEMBL
  DUF3028 UniProtKB/TrEMBL
  DUF3730 UniProtKB/TrEMBL
  Focadhesin/RST1 UniProtKB/TrEMBL
NCBI Gene 313346 ENTREZGENE
PANTHER FOCADHESIN UniProtKB/TrEMBL
  PTHR16212 UniProtKB/TrEMBL
Pfam DUF3028 UniProtKB/TrEMBL
  DUF3730 UniProtKB/TrEMBL
PhenoGen Focad PhenoGen
RatGTEx ENSRNOG00000024402 RatGTEx
Superfamily-SCOP ARM-type_fold UniProtKB/TrEMBL
UniProt A0A8I6AQM8 ENTREZGENE, UniProtKB/TrEMBL
  A0ABK0LDY3_RAT UniProtKB/TrEMBL
  A0ABK0LGJ7_RAT UniProtKB/TrEMBL
  A0ABK0LIB9_RAT UniProtKB/TrEMBL
  A0ABK0LS18_RAT UniProtKB/TrEMBL
  F1LU27 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2012-10-10 Focad  focadhesin  RGD1311849  similar to mKIAA1797 protein  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-04-30 RGD1311849  similar to mKIAA1797 protein   RGD1311849_predicted  similar to mKIAA1797 protein (predicted)  'predicted' is removed 2292626 APPROVED
2005-01-20 RGD1311849_predicted  similar to mKIAA1797 protein (predicted)  LOC313346_predicted    Symbol and Name status set to approved 1331353 APPROVED
2005-01-12 LOC313346_predicted  similar to mKIAA1797 protein (predicted)      Symbol and Name status set to provisional 70820 PROVISIONAL