Fancb (FA complementation group B) - Rat Genome Database

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Gene: Fancb (FA complementation group B) Rattus norvegicus
Analyze
Symbol: Fancb
Name: FA complementation group B
RGD ID: 1561555
Description: Predicted to be involved in negative regulation of double-strand break repair via homologous recombination; positive regulation of double-strand break repair via homologous recombination; and replication-born double-strand break repair via sister chromatid exchange. Predicted to act upstream of or within several processes, including bone marrow development; cellular response to camptothecin; and hematopoietic stem cell differentiation. Predicted to be located in chromatin. Predicted to be part of Fanconi anaemia nuclear complex. Human ortholog(s) of this gene implicated in Fanconi anemia complementation group B and head and neck squamous cell carcinoma. Orthologous to human FANCB (FA complementation group B); INTERACTS WITH 17beta-estradiol; 2,2',4,4'-Tetrabromodiphenyl ether; 2,3,7,8-tetrachlorodibenzodioxine.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: Fanconi anemia, complementation group B; LOC501552; RGD1561555; similar to CDNA sequence BC022692
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
GRCr8X33,035,387 - 33,051,993 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 EnsemblX33,035,387 - 33,051,808 (-)EnsemblGRCr8
mRatBN7.2X29,403,771 - 29,420,484 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 EnsemblX29,403,771 - 29,420,192 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_UtxX30,449,735 - 30,464,253 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0X33,873,385 - 33,887,896 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0X30,074,041 - 30,088,557 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0X31,124,018 - 31,140,790 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 EnsemblX31,124,018 - 31,140,711 (-)Ensemblrn6Rnor6.0
Rnor_5.0X31,503,522 - 31,520,366 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.4X50,143,416 - 50,157,928 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
CeleraX29,762,123 - 29,776,635 (-)NCBICelera
Cytogenetic MapXq14NCBI
JBrowse:




Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. 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.
2. OMIM Disease Annotation Pipeline OMIM Disease Annotation Pipeline
3. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
4. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
5. Comprehensive gene review and curation RGD comprehensive gene curation
6. Inactivation of the tumor suppressor genes causing the hereditary syndromes predisposing to head and neck cancer via promoter hypermethylation in sporadic head and neck cancers. Smith IM, etal., ORL J Otorhinolaryngol Relat Spec. 2010;72(1):44-50. doi: 10.1159/000292104. Epub 2010 Mar 24.
7. Downregulation of Fanconi anemia genes in sporadic head and neck squamous cell carcinoma. Wreesmann VB, etal., ORL J Otorhinolaryngol Relat Spec. 2007;69(4):218-25. Epub 2007 Apr 4.
Additional References at PubMed
PMID:20347428   PMID:25520194  


Genomics

Comparative Map Data
Fancb
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8X33,035,387 - 33,051,993 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 EnsemblX33,035,387 - 33,051,808 (-)EnsemblGRCr8
mRatBN7.2X29,403,771 - 29,420,484 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 EnsemblX29,403,771 - 29,420,192 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_UtxX30,449,735 - 30,464,253 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0X33,873,385 - 33,887,896 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0X30,074,041 - 30,088,557 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0X31,124,018 - 31,140,790 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 EnsemblX31,124,018 - 31,140,711 (-)Ensemblrn6Rnor6.0
Rnor_5.0X31,503,522 - 31,520,366 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.4X50,143,416 - 50,157,928 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
CeleraX29,762,123 - 29,776,635 (-)NCBICelera
Cytogenetic MapXq14NCBI
FANCB
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38X14,689,524 - 14,873,069 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 EnsemblX14,690,388 - 14,873,255 (-)Ensemblhg38GRCh38
GRCh37X14,813,750 - 14,891,191 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36X14,771,450 - 14,801,105 (-)NCBIBuild 36Build 36hg18NCBI36
Build 34X14,621,185 - 14,650,848NCBI
CeleraX18,976,913 - 19,006,568 (-)NCBICelera
Cytogenetic MapXp22.2NCBI
HuRefX12,620,535 - 12,649,320 (-)NCBIHuRef
CHM1_1X14,891,941 - 14,921,594 (-)NCBICHM1_1
T2T-CHM13v2.0X14,266,304 - 14,453,760 (-)NCBIT2T-CHM13v2.0
Fancb
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39X163,763,678 - 163,780,266 (+)NCBIGRCm39GRCm39mm39
GRCm39 EnsemblX163,763,588 - 163,780,268 (+)EnsemblGRCm39 EnsemblGRCm39
GRCm38X164,980,480 - 164,997,272 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 EnsemblX164,980,592 - 164,997,272 (+)Ensemblmm10GRCm38
MGSCv37X161,418,524 - 161,435,204 (+)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv36X160,324,818 - 160,341,377 (+)NCBIMGSCv36mm8
CeleraX148,182,688 - 148,199,367 (+)NCBICelera
Cytogenetic MapXF5NCBI
cM MapX76.75NCBI
Fancb
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049555193,343,446 - 3,363,814 (+)Ensembl
ChiLan1.0NW_0049555193,337,138 - 3,364,963 (+)NCBIChiLan1.0ChiLan1.0
FANCB
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2X16,638,895 - 16,673,676 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1X16,642,560 - 16,677,341 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0X7,470,574 - 7,500,958 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1X14,752,929 - 14,785,847 (-)NCBIPanPan1.1PanPan1.1panPan2
PanPan1.1 EnsemblX14,752,934 - 14,781,817 (-)EnsemblpanPan2panpan1.1
FANCB
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1X10,690,826 - 11,140,838 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 EnsemblX11,095,200 - 11,141,029 (-)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_TashaX10,590,126 - 11,048,772 (-)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.0X10,643,010 - 11,103,126 (-)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 EnsemblX10,652,282 - 11,109,766 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1X10,707,452 - 11,166,364 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0X10,698,894 - 11,157,725 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0X10,725,702 - 11,185,302 (-)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
Fancb
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2X4,301,397 - 4,330,134 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049364704,305,740 - 4,323,374 (-)EnsemblSpeTri2.0 Ensembl
SpeTri2.0NW_0049364704,305,220 - 4,323,456 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
FANCB
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 EnsemblX11,384,912 - 11,409,057 (-)EnsemblsusScr11Sscrofa11.1
Sscrofa11.1X11,386,360 - 11,408,958 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2X12,270,926 - 12,362,359 (-)NCBISscrofa10.2Sscrofa10.2susScr3
FANCB
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1X13,321,304 - 13,352,368 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 EnsemblX13,321,527 - 13,342,478 (-)EnsemblChlSab1.1 EnsemblchlSab2Vervet-AGM
Vero_WHO_p1.0NW_02366605615,154,251 - 15,187,626 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Fancb
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_004624944364,563 - 383,098 (+)EnsemblHetGla_female_1.0 EnsemblhetGla2HetGla_female_1.0 Ensembl
HetGla 1.0NW_004624944358,836 - 383,161 (+)NCBIHetGla 1.0HetGla 1.0hetGla2
Fancb
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v1X25,524,540 - 25,541,340 (+)NCBIRrattus_CSIRO_v1

Variants

.
Variants in Fancb
39 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:30
Count of miRNA genes:27
Interacting mature miRNAs:30
Transcripts:ENSRNOT00000004456
Prediction methods:Miranda, Pita, 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
1598873Memor2Memory QTL 22.5exploratory behavior trait (VT:0010471)average horizontal distance between subject and target during voluntary locomotion in an experimental apparatus (CMO:0002674)X2447036044931007Rat
70165Bp64Blood pressure QTL 645.2arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)X400149344939387Rat
2290375Gluco34Glucose level QTL 342.75blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)X2447036045082063Rat
731181Uae27Urinary albumin excretion QTL 272.70.0059urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)X197044046970440Rat
631666Iddm5Insulin dependent diabetes mellitus QTL 5blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)X811148653111486Rat

Markers in Region
RH140102  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2X29,403,839 - 29,404,152 (+)MAPPERmRatBN7.2
mRatBN7.2X29,403,936 - 29,404,152 (+)MAPPERmRatBN7.2
Rnor_6.0X31,124,328 - 31,124,543NCBIRnor6.0
Rnor_6.0X31,124,184 - 31,124,543NCBIRnor6.0
Rnor_5.0X31,503,688 - 31,504,047UniSTSRnor5.0
Rnor_5.0X31,503,832 - 31,504,047UniSTSRnor5.0
RGSC_v3.4X50,143,582 - 50,143,797UniSTSRGSC3.4
CeleraX29,762,289 - 29,762,504UniSTS
RH 3.4 MapX390.71UniSTS
Cytogenetic MapXq21UniSTS


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 91 59 6 354 191 11 144 80 92 31 17 17

Sequence


Ensembl Acc Id: ENSRNOT00000004456   ⟹   ENSRNOP00000004456
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 EnsemblX33,035,387 - 33,051,808 (-)Ensembl
mRatBN7.2 EnsemblX29,403,771 - 29,420,192 (-)Ensembl
Rnor_6.0 EnsemblX31,124,018 - 31,138,675 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000082358   ⟹   ENSRNOP00000073416
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 EnsemblX31,124,032 - 31,140,711 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000138613   ⟹   ENSRNOP00000112611
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 EnsemblX33,035,387 - 33,051,768 (-)Ensembl
RefSeq Acc Id: NM_001192003   ⟹   NP_001178932
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8X33,035,387 - 33,049,899 (-)NCBI
mRatBN7.2X29,403,771 - 29,418,283 (-)NCBI
Rnor_6.0X31,124,018 - 31,138,675 (-)NCBI
Rnor_5.0X31,503,522 - 31,520,366 (-)NCBI
CeleraX29,762,123 - 29,776,635 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006256885   ⟹   XP_006256947
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8X33,035,387 - 33,051,955 (-)NCBI
mRatBN7.2X29,403,771 - 29,420,215 (-)NCBI
Rnor_6.0X31,124,257 - 31,140,790 (-)NCBI
Rnor_5.0X31,503,522 - 31,520,366 (-)NCBI
Sequence:
RefSeq Acc Id: XM_039099959   ⟹   XP_038955887
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8X33,035,387 - 33,051,849 (-)NCBI
mRatBN7.2X29,403,771 - 29,420,397 (-)NCBI
RefSeq Acc Id: XM_039099961   ⟹   XP_038955889
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8X33,035,387 - 33,051,993 (-)NCBI
mRatBN7.2X29,403,771 - 29,420,208 (-)NCBI
RefSeq Acc Id: XM_039099963   ⟹   XP_038955891
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8X33,035,387 - 33,051,849 (-)NCBI
mRatBN7.2X29,403,771 - 29,420,397 (-)NCBI
RefSeq Acc Id: XM_039099965   ⟹   XP_038955893
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8X33,037,148 - 33,051,849 (-)NCBI
mRatBN7.2X29,405,532 - 29,420,397 (-)NCBI
RefSeq Acc Id: XM_063280242   ⟹   XP_063136312
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8X33,035,387 - 33,049,098 (-)NCBI
RefSeq Acc Id: XM_063280243   ⟹   XP_063136313
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8X33,035,387 - 33,049,098 (-)NCBI
RefSeq Acc Id: XR_005498024
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8X33,035,754 - 33,051,849 (-)NCBI
mRatBN7.2X29,404,143 - 29,420,397 (-)NCBI
RefSeq Acc Id: XR_005498025
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8X33,035,754 - 33,051,849 (-)NCBI
mRatBN7.2X29,404,143 - 29,420,397 (-)NCBI
RefSeq Acc Id: NP_001178932   ⟸   NM_001192003
- UniProtKB: D4A5I2 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006256947   ⟸   XM_006256885
- Peptide Label: isoform X1
- Sequence:
Ensembl Acc Id: ENSRNOP00000073416   ⟸   ENSRNOT00000082358
Ensembl Acc Id: ENSRNOP00000004456   ⟸   ENSRNOT00000004456
RefSeq Acc Id: XP_038955891   ⟸   XM_039099963
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038955887   ⟸   XM_039099959
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038955889   ⟸   XM_039099961
- Peptide Label: isoform X1
- UniProtKB: D4A5I2 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038955893   ⟸   XM_039099965
- Peptide Label: isoform X4
- UniProtKB: A6K2J9 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_063136313   ⟸   XM_063280243
- Peptide Label: isoform X5
RefSeq Acc Id: XP_063136312   ⟸   XM_063280242
- Peptide Label: isoform X3
Ensembl Acc Id: ENSRNOP00000112611   ⟸   ENSRNOT00000138613

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D4A5I2-F1-model_v2 AlphaFold D4A5I2 1-853 view protein structure

Transcriptome

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


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1561555 AgrOrtholog
BioCyc Gene G2FUF-2601 BioCyc
Ensembl Genes ENSRNOG00000003346 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000004456 ENTREZGENE
  ENSRNOT00000004456.9 UniProtKB/TrEMBL
  ENSRNOT00000138613 ENTREZGENE
  ENSRNOT00000138613.1 UniProtKB/TrEMBL
InterPro FANCB UniProtKB/TrEMBL
KEGG Report rno:501552 UniProtKB/TrEMBL
NCBI Gene 501552 ENTREZGENE
PANTHER FANCONI ANEMIA GROUP B PROTEIN UniProtKB/TrEMBL
  PTHR28450 UniProtKB/TrEMBL
PhenoGen Fancb PhenoGen
RatGTEx ENSRNOG00000003346 RatGTEx
UniProt A0ABK0M142_RAT UniProtKB/TrEMBL
  A6K2J9 ENTREZGENE, UniProtKB/TrEMBL
  D4A5I2 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2018-05-25 Fancb  FA complementation group B  Fancb  Fanconi anemia, complementation group B  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-02-29 Fancb  Fanconi anemia, complementation group B  RGD1561555_predicted  similar to CDNA sequence BC022692 (predicted)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2006-03-07 RGD1561555_predicted  similar to CDNA sequence BC022692 (predicted)  LOC501552  similar to CDNA sequence BC022692  Symbol and Name status set to approved 1299863 APPROVED
2006-02-09 LOC501552  similar to CDNA sequence BC022692      Symbol and Name status set to provisional 70820 PROVISIONAL