FANCF (FA complementation group F) - Rat Genome Database

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Gene: FANCF (FA complementation group F) Canis lupus familiaris
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Symbol: FANCF
Name: FA complementation group F
RGD ID: 12249015
Description: ENCODES a protein that exhibits ubiquitin protein ligase activity (ortholog); INVOLVED IN DNA damage response (ortholog); ovarian follicle development (ortholog); protein ubiquitination (ortholog); ASSOCIATED WITH adenocarcinoma in situ (ortholog); breast cancer (ortholog); disease of cellular proliferation (ortholog); FOUND IN chromatin (ortholog); nucleoplasm (ortholog)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: Fanconi anemia complementation group F
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: CanFam3.1 - Dog CanFam3.1 Assembly
Position:
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12144,253,308 - 44,256,221 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2144,255,134 - 44,256,618 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2143,728,664 - 43,731,582 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.02145,370,190 - 45,373,442 (-)NCBIROS_Cfam_1.0
UMICH_Zoey_3.12144,370,738 - 44,373,650 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02144,542,654 - 44,545,584 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02144,935,521 - 44,938,442 (-)NCBIUU_Cfam_GSD_1.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

Molecular Function

References
Additional References at PubMed
PMID:22301074   PMID:30032202  


Genomics

Comparative Map Data
FANCF
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12144,253,308 - 44,256,221 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2144,255,134 - 44,256,618 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2143,728,664 - 43,731,582 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.02145,370,190 - 45,373,442 (-)NCBIROS_Cfam_1.0
UMICH_Zoey_3.12144,370,738 - 44,373,650 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02144,542,654 - 44,545,584 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02144,935,521 - 44,938,442 (-)NCBIUU_Cfam_GSD_1.0
FANCF
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381122,622,533 - 22,625,823 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1122,622,533 - 22,625,823 (-)EnsemblGRCh38hg38GRCh38
GRCh371122,644,079 - 22,647,369 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361122,600,655 - 22,603,963 (-)NCBINCBI36Build 36hg18NCBI36
Build 341122,600,654 - 22,603,963NCBI
Celera1122,777,941 - 22,781,250 (-)NCBICelera
Cytogenetic Map11p14.3NCBI
HuRef1122,327,266 - 22,330,575 (-)NCBIHuRef
CHM1_11122,643,695 - 22,647,004 (-)NCBICHM1_1
T2T-CHM13v2.01122,743,288 - 22,746,579 (-)NCBIT2T-CHM13v2.0
Fancf
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39751,510,325 - 51,512,015 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl751,510,325 - 51,512,015 (-)EnsemblGRCm39 Ensembl
GRCm38751,860,577 - 51,862,267 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl751,860,577 - 51,862,267 (-)EnsemblGRCm38mm10GRCm38
MGSCv37759,115,947 - 59,117,637 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36759,115,947 - 59,117,624 (-)NCBIMGSCv36mm8
Celera749,233,676 - 49,235,406 (-)NCBICelera
Cytogenetic Map7B4NCBI
cM Map732.87NCBI
Fancf
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81110,585,054 - 110,587,870 (-)NCBIGRCr8
mRatBN7.21101,449,120 - 101,451,936 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1101,450,389 - 101,451,923 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1106,857,994 - 106,860,810 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01115,329,884 - 115,332,700 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01108,633,029 - 108,635,845 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01107,229,516 - 107,232,321 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1107,231,292 - 107,232,305 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01108,272,291 - 108,274,234 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41101,664,895 - 101,666,720 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera195,615,737 - 95,618,542 (-)NCBICelera
Cytogenetic Map1q22NCBI
Fancf
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554763,067,689 - 3,068,728 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049554763,067,491 - 3,069,637 (-)NCBIChiLan1.0ChiLan1.0
FANCF
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2924,912,428 - 24,915,178 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11124,876,586 - 24,881,158 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01122,634,301 - 22,637,885 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11122,542,426 - 22,546,147 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1122,544,052 - 22,545,176 (-)Ensemblpanpan1.1panPan2
Fancf
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494740,625,542 - 40,630,998 (+)NCBIHiC_Itri_2
SpeTri2.0NW_0049366543,298,193 - 3,301,251 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
FANCF
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl236,884,777 - 36,885,856 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1236,884,701 - 36,886,661 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2240,095,250 - 40,097,471 (+)NCBISscrofa10.2Sscrofa10.2susScr3
FANCF
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1142,377,150 - 42,381,653 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl142,378,883 - 42,380,007 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_023666038139,681,806 - 139,685,541 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Fancf
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462476613,583,664 - 13,585,684 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in FANCF
53 total Variants

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 reproductive system respiratory system adipose tissue
High
Medium 5 16 1 6 1 6 8 9 3
Low 5 6 5 5 6 4 8 1 3
Below cutoff

Sequence


RefSeq Acc Id: ENSCAFT00000047781   ⟹   ENSCAFP00000040041
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.1 Ensembl2144,255,134 - 44,256,618 (-)Ensembl
RefSeq Acc Id: XM_038429541   ⟹   XP_038285469
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.02145,370,190 - 45,373,442 (-)NCBI
RefSeq Acc Id: XM_038456101   ⟹   XP_038312029
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
Dog10K_Boxer_Tasha2143,728,664 - 43,731,582 (-)NCBI
RefSeq Acc Id: XM_038505087   ⟹   XP_038361015
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UMICH_Zoey_3.12144,370,738 - 44,373,650 (-)NCBI
RefSeq Acc Id: XM_038568128   ⟹   XP_038424056
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UU_Cfam_GSD_1.02144,935,521 - 44,938,442 (-)NCBI
RefSeq Acc Id: XM_038632219   ⟹   XP_038488147
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UNSW_CanFamBas_1.02144,542,654 - 44,545,584 (-)NCBI
RefSeq Acc Id: ENSCAFP00000040041   ⟸   ENSCAFT00000047781
RefSeq Acc Id: XP_038361015   ⟸   XM_038505087
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038488147   ⟸   XM_038632219
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038285469   ⟸   XM_038429541
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038312029   ⟸   XM_038456101
- Peptide Label: isoform X3
RefSeq Acc Id: XP_038424056   ⟸   XM_038568128
- Peptide Label: isoform X1

Promoters
RGD ID:13687277
Promoter ID:EPDNEW_C5344
Type:multiple initiation site
Name:FANCF_1
Description:Fanconi anemia complementation group F
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.12144,256,221 - 44,256,281EPDNEW

Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSCAFG00000029498 Ensembl
  ENSCAFG00000057851 UniProtKB/TrEMBL
  ENSCAFG00845023242 UniProtKB/TrEMBL
Ensembl Transcript ENSCAFT00000107637.1 UniProtKB/TrEMBL
  ENSCAFT00845041005.1 UniProtKB/TrEMBL
Gene3D-CATH 1.25.40.490 UniProtKB/TrEMBL
InterPro FANCF UniProtKB/TrEMBL
  FANCF_C_sf UniProtKB/TrEMBL
NCBI Gene FANCF ENTREZGENE
PANTHER FANCONI ANEMIA GROUP F PROTEIN UniProtKB/TrEMBL
  PTHR14449 UniProtKB/TrEMBL
Pfam FANCF UniProtKB/TrEMBL
UniProt A0A8I3PML5_CANLF UniProtKB/TrEMBL
  A0A8P0PNT3_CANLF UniProtKB/TrEMBL
VGNC ID VGNC:40721 ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2018-05-15 FANCF  FA complementation group F    Fanconi anemia complementation group F  Symbol and/or name change 5135510 APPROVED