Fancb (FA complementation group B) - Rat Genome Database

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Gene: Fancb (FA complementation group B) Rattus norvegicus
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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 cellular response to camptothecin and cellular response to xenobiotic stimulus. Predicted to be part of Fanconi anaemia nuclear complex and chromatin. 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: INFERRED
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
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8X33,035,387 - 33,051,993 (-)NCBIGRCr8
mRatBN7.2X29,403,771 - 29,420,484 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 EnsemblX29,403,771 - 29,420,192 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_UtxX30,449,735 - 30,464,253 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0X33,873,385 - 33,887,896 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0X30,074,041 - 30,088,557 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0X31,124,018 - 31,140,790 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 EnsemblX31,124,018 - 31,140,711 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0X31,503,522 - 31,520,366 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4X50,143,416 - 50,157,928 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
CeleraX29,762,123 - 29,776,635 (-)NCBICelera
Cytogenetic MapXq14NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


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 (-)NCBIGRCr8
mRatBN7.2X29,403,771 - 29,420,484 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 EnsemblX29,403,771 - 29,420,192 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_UtxX30,449,735 - 30,464,253 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0X33,873,385 - 33,887,896 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0X30,074,041 - 30,088,557 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0X31,124,018 - 31,140,790 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 EnsemblX31,124,018 - 31,140,711 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0X31,503,522 - 31,520,366 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4X50,143,416 - 50,157,928 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
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 (-)EnsemblGRCh38hg38GRCh38
GRCh37X14,861,527 - 14,891,191 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36X14,771,450 - 14,801,105 (-)NCBINCBI36Build 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 Ensembl
GRCm38X164,980,480 - 164,997,272 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 EnsemblX164,980,592 - 164,997,272 (+)EnsemblGRCm38mm10GRCm38
MGSCv37X161,418,524 - 161,435,204 (+)NCBIGRCm37MGSCv37mm9NCBIm37
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 (+)EnsemblChiLan1.0
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 (-)Ensemblpanpan1.1panPan2
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 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_TashaX10,590,126 - 11,048,772 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0X10,643,010 - 11,103,126 (-)NCBIROS_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_1.0
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 (-)EnsemblSpeTri2.0SpeTri2.0 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 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
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 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
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_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_004624944358,836 - 383,161 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Fancb
61 total Variants
miRNA Target Status

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 (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
731181Uae27Urinary albumin excretion QTL 272.70.0059urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)X143491017Rat
70165Bp64Blood pressure QTL 645.2arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)X144812931706553Rat
1298071Edpm12Estrogen-dependent pituitary mass QTL 123.2pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)X292789847927898Rat
10755455Coatc13Coat color QTL 130coat/hair pigmentation trait (VT:0010463)pigmented ventral coat/hair area to total ventral coat/hair area ratio (CMO:0001812)7440600049406000Rat
631666Iddm5Insulin dependent diabetes mellitus QTL 5blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)X449454949494549Rat
61430Cia18Collagen induced arthritis QTL 183.1joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)X14843113120568734Rat
71116Niddm16Non-insulin dependent diabetes mellitus QTL 167.81blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)X1529780260297802Rat
1598873Memor2Memory QTL 22.5exploratory behavior trait (VT:0010471)average horizontal distance between subject and target during voluntary locomotion in an experimental apparatus (CMO:0002674)X2099094741052531Rat
2290375Gluco34Glucose level QTL 342.75blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)X2099094741203591Rat

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
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 4 12 6 7 6 18 16 25
Low 3 39 38 28 12 28 5 5 56 18 15 11 5
Below cutoff 7 7 7 3 6 1 1 3

Sequence


RefSeq Acc Id: ENSRNOT00000004456   ⟹   ENSRNOP00000004456
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 EnsemblX29,403,771 - 29,420,192 (-)Ensembl
Rnor_6.0 EnsemblX31,124,018 - 31,138,675 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000082358   ⟹   ENSRNOP00000073416
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 EnsemblX31,124,032 - 31,140,711 (-)Ensembl
RefSeq Acc Id: NM_001192003   ⟹   NP_001178932
RefSeq Status: INFERRED
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
- UniProtKB: D4A5I2 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000073416   ⟸   ENSRNOT00000082358
RefSeq 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
- UniProtKB: D4A5I2 (UniProtKB/TrEMBL)
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

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 ENSRNOT00000004456.8 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 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