Fam90a1a (family with sequence similarity 90 member A1A) - Rat Genome Database

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Gene: Fam90a1a (family with sequence similarity 90 member A1A) Rattus norvegicus
Analyze
Symbol: Fam90a1a (Ensembl: Fam90a1)
Name: family with sequence similarity 90 member A1A (Ensembl:family with sequence similarity 90, member A1)
RGD ID: 2318111
Description: Orthologous to human FAM90A1 (family with sequence similarity 90 member A1); INTERACTS WITH Cuprizon; 1,2-dichloroethane (ortholog); aflatoxin B1 (ortholog).
Type: protein-coding
RefSeq Status: MODEL
Previously known as: Fam90a1; Fam90a1-ps2; Fam90a13p; family with sequence similarity 90, member A1; family with sequence similarity 90, member A1-pseudogene 2; family with sequence similarity 90, member A13, pseudogene; family with sequence similarity 90, member A1A; LOC100362477; LOC100362525; putative protein FAM90A7P; putative protein FAM90A8P; rCG43168-like; uncharacterized protein LOC100362477
RGD Orthologs
Human
Mouse
Bonobo
Squirrel
Green Monkey
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81676,801,218 - 76,808,469 (-)NCBIGRCr8
mRatBN7.21670,098,439 - 70,106,147 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1670,098,740 - 70,101,241 (-)EnsemblmRatBN7.2 Ensembl
Rnor_6.01675,001,033 - 75,016,173 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01674,626,599 - 74,640,342 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41674,759,203 - 74,766,437 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera1667,931,888 - 67,933,197 (-)NCBICelera
Cytogenetic Map16q12.5NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
Gene Ontology Annotations     Click to see Annotation Detail View

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions

Genomics

Comparative Map Data
Fam90a1a
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81676,801,218 - 76,808,469 (-)NCBIGRCr8
mRatBN7.21670,098,439 - 70,106,147 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1670,098,740 - 70,101,241 (-)EnsemblmRatBN7.2 Ensembl
Rnor_6.01675,001,033 - 75,016,173 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01674,626,599 - 74,640,342 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41674,759,203 - 74,766,437 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera1667,931,888 - 67,933,197 (-)NCBICelera
Cytogenetic Map16q12.5NCBI
FAM90A1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38128,221,260 - 8,227,618 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl128,221,260 - 8,227,618 (-)EnsemblGRCh38hg38GRCh38
GRCh37128,373,856 - 8,380,214 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36128,265,123 - 8,271,481 (-)NCBINCBI36Build 36hg18NCBI36
Celera129,940,151 - 9,946,507 (-)NCBICelera
Cytogenetic Map12p13.31NCBI
HuRef128,186,819 - 8,193,174 (-)NCBIHuRef
CHM1_1128,373,231 - 8,379,586 (-)NCBICHM1_1
T2T-CHM13v2.0128,235,339 - 8,241,697 (-)NCBIT2T-CHM13v2.0
Fam90a1a
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39822,448,730 - 22,454,319 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl822,448,730 - 22,454,319 (+)EnsemblGRCm39 Ensembl
GRCm38821,958,714 - 21,964,303 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl821,958,714 - 21,964,303 (+)EnsemblGRCm38mm10GRCm38
MGSCv37823,069,186 - 23,074,775 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36823,424,259 - 23,429,848 (+)NCBIMGSCv36mm8
Celera823,454,852 - 23,460,459 (+)NCBICelera
Cytogenetic Map8A2NCBI
cM Map810.7NCBI
FAM90A1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21013,767,779 - 13,790,318 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11213,760,356 - 13,787,060 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0128,343,013 - 8,346,624 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
LOC101972289
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024405058109,776,198 - 109,781,052 (+)NCBIHiC_Itri_2
SpeTri2.0NW_00493732719,316 - 24,170 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
LOC103215310
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.187,022,338 - 7,025,445 (+)NCBIChlSab1.1ChlSab1.1chlSab2
Vero_WHO_p1.0NW_0236660585,730,096 - 5,734,597 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0

Variants

.
Variants in Fam90a1a
35 total Variants

QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1600378Arunc4Aerobic running capacity QTL 40.03exercise endurance trait (VT:0002332)maximum distance run on treadmill (CMO:0001406)1638024580345693Rat
70205Gcr3Gastric cancer resistance QTL 32.3stomach morphology trait (VT:0000470)stomach tumor depth of invasion (CMO:0001888)161769679182635055Rat
70205Gcr3Gastric cancer resistance QTL 32.3stomach morphology trait (VT:0000470)stomach tumor depth of invasion (CMO:0001888)161769679182635055Rat
70205Gcr3Gastric cancer resistance QTL 32.3stomach morphology trait (VT:0000470)stomach tumor diameter (CMO:0001889)161769679182635055Rat
70205Gcr3Gastric cancer resistance QTL 32.3stomach morphology trait (VT:0000470)stomach tumor diameter (CMO:0001889)161769679182635055Rat
70215Niddm29Non-insulin dependent diabetes mellitus QTL 293.54blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)161900443575226532Rat
6903294Stl30Serum triglyceride level QTL 302.60.0013blood triglyceride amount (VT:0002644)plasma triglyceride level (CMO:0000548)162515279370152793Rat
1578768Stresp22Stress response QTL 222.8thymus mass (VT:0004954)thymus wet weight (CMO:0000855)163528887080288870Rat
2293690Bss45Bone structure and strength QTL 455.130.0001lumbar vertebra morphology trait (VT:0010494)lumbar vertebra cortical cross-sectional area (CMO:0001690)163775215682752156Rat
2300163Bmd64Bone mineral density QTL 645.30.0001lumbar vertebra mineral mass (VT:0010511)volumetric bone mineral density (CMO:0001553)163775215682752156Rat
7205510Activ5Activity QTL 53.780.00028locomotor behavior trait (VT:0001392)number of entries into a discrete space in an experimental apparatus (CMO:0000960)164239634584729064Rat
8694429Bw164Body weight QTL 16450.001body lean mass (VT:0010483)lean tissue morphological measurement (CMO:0002184)165272646484729064Rat
8694364Abfw7Abdominal fat weight QTL 712.220.001visceral adipose mass (VT:0010063)abdominal fat pad weight to body weight ratio (CMO:0000095)165272646484729064Rat
7411648Foco22Food consumption QTL 22150.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)165272646484729064Rat
631525Pia14Pristane induced arthritis QTL 144.4joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)165571108783402471Rat
1298527Arunc2Aerobic running capacity QTL 22.9exercise endurance trait (VT:0002332)maximum distance run on treadmill (CMO:0001406)166853271675029966Rat


Expression


Sequence


RefSeq Acc Id: ENSRNOT00000098123   ⟹   ENSRNOP00000096401
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1670,098,740 - 70,101,241 (-)Ensembl
RefSeq Acc Id: XM_002728417   ⟹   XP_002728463
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81676,801,218 - 76,808,469 (-)NCBI
mRatBN7.21670,098,439 - 70,106,147 (-)NCBI
Rnor_6.01675,001,033 - 75,016,173 (-)NCBI
Rnor_5.01674,626,599 - 74,640,342 (-)NCBI
RGSC_v3.41674,759,203 - 74,766,437 (-)RGD
Sequence:
Protein Sequences
Protein RefSeqs XP_002728463 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein EDM08980 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000096401
  ENSRNOP00000096401.1
RefSeq Acc Id: XP_002728463   ⟸   XM_002728417
- UniProtKB: A6IW92 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000096401   ⟸   ENSRNOT00000098123
Protein Domains
Zinc knuckle

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:2318111 AgrOrtholog
BioCyc Gene G2FUF-10850 BioCyc
Ensembl Genes ENSRNOG00000067448 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000098123.1 UniProtKB/TrEMBL
InterPro FAM90 UniProtKB/TrEMBL
  Znf-CCHC_6 UniProtKB/TrEMBL
NCBI Gene 100362477 ENTREZGENE
PANTHER PROTEIN FAM90A10P-RELATED UniProtKB/TrEMBL
  PTHR16035 UniProtKB/TrEMBL
Pfam zf-CCHC_6 UniProtKB/TrEMBL
PhenoGen Fam90a1a PhenoGen
RatGTEx ENSRNOG00000067448 RatGTEx
UniProt A0A8I6B451_RAT UniProtKB/TrEMBL
  A6IW92 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2023-09-28 Fam90a1a  family with sequence similarity 90 member A1A  Fam90a1a  family with sequence similarity 90, member A1A  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2023-09-18 Fam90a1a  family with sequence similarity 90, member A1A  Fam90a1  family with sequence similarity 90, member A1  Name and Symbol changed 629549 APPROVED
2022-06-02 Fam90a1  family with sequence similarity 90, member A1  Fam90a1  family with sequence similarity 90, member A1  Data merged from RGD:149736120 737654 PROVISIONAL
2021-08-09 Fam90a1  family with sequence similarity 90, member A1      Symbol and Name status set to provisional 45752 PROVISIONAL
2015-07-29 Fam90a1  family with sequence similarity 90, member A1  LOC100362525  rCG43168-like  Data merged from RGD:2324529 737654 PROVISIONAL
2013-03-05 Fam90a1  family with sequence similarity 90, member A1  Fam90a1-ps2  family with sequence similarity 90, member A1-pseudogene 2  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2013-01-14 Fam90a1-ps2  family with sequence similarity 90, member A1-pseudogene 2  Fam90a13p  family with sequence similarity 90, member A13, pseudogene  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2012-08-29 Fam90a13p  family with sequence similarity 90, member A13, pseudogene  LOC100362477  rCG43168-like  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2010-05-06 LOC100362525  rCG43168-like      Symbol and Name status set to provisional 70820 PROVISIONAL
2010-05-05 LOC100362477  rCG43168-like      Symbol and Name status set to provisional 70820 PROVISIONAL