Fcrla (Fc receptor-like A) - Rat Genome Database

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Gene: Fcrla (Fc receptor-like A) Rattus norvegicus
Analyze
Symbol: Fcrla
Name: Fc receptor-like A
RGD ID: 1306176
Description: Predicted to enable transmembrane signaling receptor activity. Predicted to be involved in cell surface receptor signaling pathway. Predicted to be located in cytoplasm. Predicted to be active in plasma membrane. Orthologous to human FCRLA (Fc receptor like A); INTERACTS WITH 2,2',4,4'-Tetrabromodiphenyl ether; 2,3,7,8-tetrachlorodibenzodioxine; 2-methoxyethanol.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: Fc receptor homolog expressed in B cells; fc receptor-like and mucin-like protein 1; Fcrlm1; LOC304965; RGD1306176; similar to FCRL
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
mRatBN7.21383,160,453 - 83,170,170 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1383,160,398 - 83,170,762 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1385,780,345 - 85,789,879 (-)NCBIRnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.01387,073,816 - 87,083,350 (-)NCBIRnor_SHRSP
UTH_Rnor_WKY_Bbb_1.01384,311,669 - 84,321,318 (-)NCBIRnor_WKY
Rnor_6.01389,296,570 - 89,306,219 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1389,296,573 - 89,306,260 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01393,908,944 - 93,918,593 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41386,775,240 - 86,785,309 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11386,789,375 - 86,807,978 (-)NCBI
Celera1382,813,343 - 82,822,992 (-)NCBICelera
Cytogenetic Map13q24NCBI
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

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. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
3. GOA pipeline RGD automated data pipeline
4. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:12477932   PMID:15057822   PMID:15489334   PMID:15815692  


Genomics

Comparative Map Data
Fcrla
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21383,160,453 - 83,170,170 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1383,160,398 - 83,170,762 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1385,780,345 - 85,789,879 (-)NCBIRnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.01387,073,816 - 87,083,350 (-)NCBIRnor_SHRSP
UTH_Rnor_WKY_Bbb_1.01384,311,669 - 84,321,318 (-)NCBIRnor_WKY
Rnor_6.01389,296,570 - 89,306,219 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1389,296,573 - 89,306,260 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01393,908,944 - 93,918,593 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41386,775,240 - 86,785,309 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11386,789,375 - 86,807,978 (-)NCBI
Celera1382,813,343 - 82,822,992 (-)NCBICelera
Cytogenetic Map13q24NCBI
FCRLA
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381161,707,229 - 161,714,352 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p13 Ensembl1161,706,972 - 161,714,352 (+)EnsemblGRCh38hg38GRCh38
GRCh371161,677,019 - 161,684,142 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361159,943,386 - 159,950,766 (+)NCBINCBI36Build 36hg18NCBI36
Celera1134,780,209 - 134,787,589 (+)NCBICelera
Cytogenetic Map1q23.3NCBI
HuRef1132,921,304 - 132,928,684 (+)NCBIHuRef
CHM1_11163,098,565 - 163,105,945 (+)NCBICHM1_1
T2T-CHM13v2.01161,051,554 - 161,058,676 (+)NCBIT2T-CHM13v2.0
Fcrla
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391170,745,163 - 170,755,169 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1170,745,145 - 170,755,152 (-)EnsemblGRCm39 Ensembl
GRCm381170,917,594 - 170,932,216 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1170,917,576 - 170,927,583 (-)EnsemblGRCm38mm10GRCm38
MGSCv371172,847,725 - 172,857,714 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361172,754,561 - 172,764,215 (-)NCBIMGSCv36mm8
Celera1173,367,594 - 173,378,915 (-)NCBICelera
Cytogenetic Map1H3NCBI
Fcrla
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495546214,603,497 - 14,612,229 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495546214,604,985 - 14,611,935 (-)NCBIChiLan1.0ChiLan1.0
FCRLA
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.11140,918,698 - 140,926,074 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1140,918,698 - 140,926,515 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v01137,119,112 - 137,126,486 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
FCRLA
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.13820,955,955 - 20,962,646 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl3820,955,944 - 20,962,646 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha3821,007,870 - 21,014,563 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.03821,038,865 - 21,045,550 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl3821,038,868 - 21,045,953 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.13821,010,807 - 21,017,493 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.03821,364,092 - 21,370,781 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.03821,640,013 - 21,646,699 (-)NCBIUU_Cfam_GSD_1.0
Fcrla
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_0244050587,589,218 - 7,597,806 (+)NCBIHiC_Itri_2
SpeTri2.0NW_004937131108,524 - 116,330 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
FCRLA
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl488,845,464 - 88,855,293 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1488,846,054 - 88,855,310 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2496,861,730 - 96,870,545 (-)NCBISscrofa10.2Sscrofa10.2susScr3
FCRLA
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1202,359,034 - 2,366,986 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl202,359,035 - 2,366,699 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_0236660381,401,571 - 1,409,519 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Fcrla
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_004624826132,303 - 137,926 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_004624826129,146 - 136,095 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Fcrla
47 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:122
Count of miRNA genes:94
Interacting mature miRNAs:103
Transcripts:ENSRNOT00000004183
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 (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
70181BpQTLcluster11Blood pressure QTL cluster 116.922arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)133124133193395974Rat
70181BpQTLcluster11Blood pressure QTL cluster 116.922arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)133124133193395974Rat
70181BpQTLcluster11Blood pressure QTL cluster 116.922arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)133124133193395974Rat
70181BpQTLcluster11Blood pressure QTL cluster 116.922arterial blood pressure trait (VT:2000000)absolute change in mean arterial blood pressure (CMO:0000533)133124133193395974Rat
71119Thym2Thymus enlargement QTL 23.8thymus mass (VT:0004954)thymus weight to body weight ratio (CMO:0000612)134619797684753113Rat
619615Bp80Blood pressure QTL 800.0354arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)133975454484754544Rat
1298066Bp159Blood pressure QTL 1590.004arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)134608804691088046Rat
1331783Bp221Blood pressure QTL 2213.72886arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)136906051986800898Rat
738026Lnnr5Liver neoplastic nodule remodeling QTL 53.29liver integrity trait (VT:0010547)liver remodeling tumorous lesion number (CMO:0001461)135987440885581182Rat
738027Lnnr6Liver neoplastic nodule remodeling QTL 63.3liver integrity trait (VT:0010547)liver remodeling tumorous lesion number (CMO:0001461)137486211785581182Rat
1300166Kidm6Kidney mass QTL 63.93kidney mass (VT:0002707)single kidney wet weight to body weight ratio (CMO:0000622)136906051986800898Rat
1641901Alcrsp6Alcohol response QTL 6response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)135236217197362171Rat
1581570Eae17Experimental allergic encephalomyelitis QTL 174.1nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis incidence/prevalence measurement (CMO:0001046)138897350101631289Rat
2293687Bss26Bone structure and strength QTL 264.60.0001femur morphology trait (VT:0000559)femur cross-sectional area (CMO:0001661)1365103704106807694Rat
2293702Bss34Bone structure and strength QTL 344.610.0001femur strength trait (VT:0010010)femur midshaft polar moment of inertia (CMO:0001669)1365103704106807694Rat
1354621Rf47Renal function QTL 473.7kidney renin amount (VT:0010559)kidney renin level (CMO:0002166)1330395351101056920Rat
1354655Bp241Blood pressure QTL 2413.9arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1356056920101056920Rat
1354666Bp244Blood pressure QTL 2444.9arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)131101056920Rat
1354666Bp244Blood pressure QTL 2444.9arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)131101056920Rat
1354666Bp244Blood pressure QTL 2444.9arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)131101056920Rat
1549897Stresp12Stress response QTL 123.35stress-related behavior trait (VT:0010451)number of approaches toward negative stimulus before onset of defensive burying response (CMO:0001960)133843340883433408Rat
2293341Glom15Glomerulus QTL 159.1kidney glomerulus integrity trait (VT:0010546)kidney sclerotic glomeruli count to total glomeruli count ratio (CMO:0001269)1374862117101339893Rat
4889606Gluco63Glucose level QTL 632.860.003blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)1380753256106807694Rat
7207885Glom27Glomerulus QTL 273.9kidney glomerulus integrity trait (VT:0010546)kidney crescentic glomeruli count to kidney normal glomeruli count ratio (CMO:0002139)1320605871101339738Rat
8655945Rf61Renal function QTL 613.6blood creatinine amount (VT:0005328)creatinine clearance (CMO:0000765)136906051986800898Rat
8655959Pur32Proteinuria QTL 328.4total urine protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)137402391897213863Rat
12879444Bp397Blood pressure QTL 397arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)134504940490049404Rat
12879475Bp400Blood pressure QTL 400arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1361825626106807694Rat
12879441Bp396Blood pressure QTL 396arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)134569998390699983Rat
12879471Bp398Blood pressure QTL 398arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)134551471990514719Rat

Markers in Region
AA875627  
Rat AssemblyChrPosition (strand)SourceJBrowse
Cytogenetic Map13q24UniSTS


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 2 11 19 3
Low 1 9 49 33 8 33 3 3 11 19 22 8 3
Below cutoff 34 8 8 8 5 7 49 16 5

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000004183   ⟹   ENSRNOP00000004183
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1383,160,456 - 83,170,102 (-)Ensembl
Rnor_6.0 Ensembl1389,296,573 - 89,306,219 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000079247   ⟹   ENSRNOP00000074778
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1383,160,398 - 83,170,762 (-)Ensembl
Rnor_6.0 Ensembl1389,296,730 - 89,306,260 (-)Ensembl
RefSeq Acc Id: NM_001100682   ⟹   NP_001094152
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21383,160,453 - 83,170,102 (-)NCBI
Rnor_6.01389,296,570 - 89,306,219 (-)NCBI
Rnor_5.01393,908,944 - 93,918,593 (-)NCBI
RGSC_v3.41386,775,240 - 86,785,309 (-)RGD
Celera1382,813,343 - 82,822,992 (-)RGD
Sequence:
RefSeq Acc Id: XM_039090795   ⟹   XP_038946723
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21383,160,902 - 83,170,170 (-)NCBI
Reference Sequences
RefSeq Acc Id: NP_001094152   ⟸   NM_001100682
- Peptide Label: precursor
- UniProtKB: Q3B8P2 (UniProtKB/Swiss-Prot),   B0BNH2 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000074778   ⟸   ENSRNOT00000079247
RefSeq Acc Id: ENSRNOP00000004183   ⟸   ENSRNOT00000004183
RefSeq Acc Id: XP_038946723   ⟸   XM_039090795
- Peptide Label: isoform X1
- UniProtKB: A0A0G2K8Y0 (UniProtKB/TrEMBL)
Protein Domains
Ig-like   Ig-like C2-type

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q3B8P2-F1-model_v2 AlphaFold Q3B8P2 1-347 view protein structure

Transcriptome

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

Promoters
RGD ID:13698989
Promoter ID:EPDNEW_R9514
Type:initiation region
Name:Fcrla_1
Description:Fc receptor-like A
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_6.01389,306,229 - 89,306,289EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1306176 AgrOrtholog
BioCyc Gene G2FUF-17461 BioCyc
Ensembl Genes ENSRNOG00000003136 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000004183 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSRNOP00000074778.2 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000004183 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSRNOT00000079247.2 UniProtKB/TrEMBL
Gene3D-CATH 2.60.40.10 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7375319 IMAGE-MGC_LOAD
  IMAGE:7376173 IMAGE-MGC_LOAD
InterPro Ig-like_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Ig-like_dom_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Ig-like_fold UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Ig_sub UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Ig_sub2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:304965 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
MGC_CLONE MGC:125062 IMAGE-MGC_LOAD
  MGC:188261 IMAGE-MGC_LOAD
NCBI Gene 304965 ENTREZGENE
Pfam Ig_2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Fcrla PhenoGen
PROSITE IG_LIKE UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
SMART IGc2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SM00409 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF48726 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt A0A0G2K8Y0 ENTREZGENE, UniProtKB/TrEMBL
  B0BNH2 ENTREZGENE, UniProtKB/TrEMBL
  FCRLA_RAT UniProtKB/Swiss-Prot, ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-03-07 Fcrla  Fc receptor-like A  RGD1306176  similar to FCRL  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2005-12-06 RGD1306176  similar to FCRL  RGD1306176_predicted  similar to FCRL (predicted)  Symbol and Name updated 1559027 APPROVED
2005-01-20 RGD1306176_predicted  similar to FCRL (predicted)  LOC304965_predicted    Symbol and Name status set to approved 1331353 APPROVED
2005-01-12 LOC304965_predicted  similar to FCRL (predicted)      Symbol and Name status set to provisional 70820 PROVISIONAL