Focad (focadhesin) - Rat Genome Database

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Gene: Focad (focadhesin) Ictidomys tridecemlineatus
Analyze
Symbol: Focad
Name: focadhesin
RGD ID: 12552646
Description: INVOLVED IN regulation of post-transcriptional gene silencing (inferred); ASSOCIATED WITH genetic disease (ortholog); liver cirrhosis (ortholog); schizophrenia (ortholog); FOUND IN focal adhesion (inferred)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: focadhesin, transcript variant X1; focadhesin, transcript variant X2; focadhesin, transcript variant X3; focadhesin, transcript variant X4
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Dog
Pig
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: SpeTri2.0 - Squirrel SpeTri2.0 Assembly
Position:
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 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049366522,361,776 - 2,643,527 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

Molecular Function

References
Additional References at PubMed
PMID:30032202  


Genomics

Comparative Map Data
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 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049366522,361,776 - 2,643,527 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
FOCAD
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38920,655,625 - 20,995,950 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl920,658,309 - 20,995,955 (+)EnsemblGRCh38hg38GRCh38
GRCh37920,658,308 - 20,995,949 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36920,648,309 - 20,985,954 (+)NCBINCBI36Build 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 Ensembl
GRCm38488,094,620 - 88,411,011 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl488,094,629 - 88,411,011 (+)EnsemblGRCm38mm10GRCm38
MGSCv37487,740,534 - 88,056,915 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36487,565,861 - 87,882,242 (+)NCBIMGSCv36mm8
Celera486,619,576 - 86,926,697 (+)NCBICelera
Cytogenetic Map4C4NCBI
cM Map441.4NCBI
Focad
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr85107,610,489 - 107,932,485 (+)NCBIGRCr8
mRatBN7.25102,564,560 - 102,886,587 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl5102,564,598 - 102,886,582 (+)EnsemblmRatBN7.2 Ensembl
Rnor_6.05106,409,411 - 106,729,308 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl5106,409,456 - 106,730,684 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.05110,390,888 - 110,709,983 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.45107,467,537 - 107,704,012 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.15107,360,765 - 107,708,917 (+)NCBI
Celera5100,226,285 - 100,542,835 (-)NCBICelera
Cytogenetic Map5q32NCBI
Focad
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495543422,951,572 - 23,230,545 (+)EnsemblChiLan1.0
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 (+)Ensemblpanpan1.1panPan2
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 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1138,928,212 - 39,240,145 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.01141,207,527 - 41,519,558 (+)NCBIROS_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_1.0
FOCAD
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1201,942,463 - 202,258,794 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11201,938,993 - 202,258,924 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21225,618,600 - 225,842,443 (-)NCBISscrofa10.2Sscrofa10.2susScr3
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_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462473624,635,453 - 24,999,908 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2


Sequence


Ensembl Acc Id: ENSSTOT00000015768   ⟹   ENSSTOP00000014111
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
SpeTri2.0 EnsemblNW_0049366522,361,735 - 2,643,694 (+)Ensembl
RefSeq Acc Id: XM_005335907   ⟹   XP_005335964
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
HiC_Itri_2NW_024404947154,692,220 - 154,974,020 (+)NCBI
SpeTri2.0NW_0049366522,361,776 - 2,643,527 (+)NCBI
Sequence:
RefSeq Acc Id: XM_021733689   ⟹   XP_021589364
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
HiC_Itri_2NW_024404947154,692,219 - 154,974,020 (+)NCBI
SpeTri2.0NW_0049366522,361,776 - 2,643,527 (+)NCBI
Sequence:
RefSeq Acc Id: XM_021733690   ⟹   XP_021589365
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
HiC_Itri_2NW_024404947154,692,323 - 154,974,020 (+)NCBI
SpeTri2.0NW_0049366522,383,888 - 2,643,527 (+)NCBI
Sequence:
RefSeq Acc Id: XM_040285848   ⟹   XP_040141782
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
HiC_Itri_2NW_024404947154,692,288 - 154,974,020 (+)NCBI
RefSeq Acc Id: XM_040285850   ⟹   XP_040141784
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
HiC_Itri_2NW_024404947154,692,288 - 154,974,020 (+)NCBI
RefSeq Acc Id: XM_040285851   ⟹   XP_040141785
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
HiC_Itri_2NW_024404947154,713,231 - 154,974,020 (+)NCBI
RefSeq Acc Id: XM_040285852   ⟹   XP_040141786
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
HiC_Itri_2NW_024404947154,756,595 - 154,974,020 (+)NCBI
RefSeq Acc Id: XM_040285853   ⟹   XP_040141787
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
HiC_Itri_2NW_024404947154,754,226 - 154,974,020 (+)NCBI
RefSeq Acc Id: XP_005335964   ⟸   XM_005335907
- Peptide Label: isoform X4
- UniProtKB: I3MQB5 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_021589364   ⟸   XM_021733689
- Peptide Label: isoform X3
- Sequence:
RefSeq Acc Id: XP_021589365   ⟸   XM_021733690
- Peptide Label: isoform X5
- Sequence:
RefSeq Acc Id: XP_040141782   ⟸   XM_040285848
- Peptide Label: isoform X1
RefSeq Acc Id: XP_040141784   ⟸   XM_040285850
- Peptide Label: isoform X2
RefSeq Acc Id: XP_040141785   ⟸   XM_040285851
- Peptide Label: isoform X3
RefSeq Acc Id: XP_040141787   ⟸   XM_040285853
- Peptide Label: isoform X7
RefSeq Acc Id: XP_040141786   ⟸   XM_040285852
- Peptide Label: isoform X6
Ensembl Acc Id: ENSSTOP00000014111   ⟸   ENSSTOT00000015768
Protein Domains
DUF3730   Focadhesin C-terminal


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSSTOG00000015742 Ensembl, UniProtKB/TrEMBL
Ensembl Transcript ENSSTOT00000015768.3 UniProtKB/TrEMBL
InterPro ARM-type_fold UniProtKB/TrEMBL
  DUF3730 UniProtKB/TrEMBL
  Focadhesin UniProtKB/TrEMBL
  Focadhesin/RST1 UniProtKB/TrEMBL
NCBI Gene Focad ENTREZGENE
PANTHER FOCADHESIN UniProtKB/TrEMBL
  PTHR16212 UniProtKB/TrEMBL
Pfam DUF3730 UniProtKB/TrEMBL
  Focadhesin UniProtKB/TrEMBL
Superfamily-SCOP SSF48371 UniProtKB/TrEMBL
UniProt I3MQB5 ENTREZGENE, UniProtKB/TrEMBL