Frg1-ps1 (FSHD region gene 1, pseudogene 1) - Rat Genome Database

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Gene: Frg1-ps1 (FSHD region gene 1, pseudogene 1) Rattus norvegicus
Analyze
No known orthologs.
Symbol: Frg1-ps1
Name: FSHD region gene 1, pseudogene 1
RGD ID: 1592278
Description: Predicted to enable actin filament binding activity. Predicted to be involved in muscle organ development and rRNA processing. Predicted to be located in Cajal body and Z disc. Predicted to be part of catalytic step 2 spliceosome. Predicted to be active in nucleolus and striated muscle dense body. Orthologous to human FRG1 (FSHD region gene 1); INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; atrazine; bisphenol A.
Type: pseudo (Ensembl: protein-coding)
RefSeq Status: INFERRED
Previously known as: Frg1; Frg1l1; FSHD region gene 1; FSHD region gene 1-like 1; LOC689484; similar to FRG1 protein (FSHD region gene 1 protein)
RGD Orthologs
Alliance Orthologs
More Info homologs ...
Related Functional Gene: Frg1  
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81235,904,822 - 35,905,740 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl1235,904,824 - 35,905,747 (-)EnsemblGRCr8
mRatBN7.21230,269,021 - 30,269,933 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1230,269,096 - 30,269,872 (-)EnsemblmRatBN7.2
Rnor_6.01234,003,856 - 34,004,722 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1234,003,895 - 34,004,671 (-)Ensemblrn6Rnor6.0
Rnor_5.01235,899,583 - 35,900,448 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.41231,330,420 - 31,331,196 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera1231,949,622 - 31,950,488 (-)NCBICelera
Cytogenetic Map12q14NCBI
JBrowse:




Gene-Chemical Interaction 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. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
3. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions

Genomics

Variants

.
Variants in Frg1-ps1
14 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:186
Count of miRNA genes:162
Interacting mature miRNAs:177
Transcripts:ENSRNOT00000001279
Prediction methods:Microtar, Miranda, Rnahybrid
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
631560Apr1Acute phase response QTL 16.1orosomucoid 1 amount (VT:0010541)plasma orosomucoid 1 level (CMO:0001467)122480502252308831Rat
70213Niddm27Non-insulin dependent diabetes mellitus QTL 273.72blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)121120049452308831Rat
8552964Pigfal17Plasma insulin-like growth factor 1 level QTL 173.5blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)121120049452308831Rat
8693635Alc28Alcohol consumption QTL 282.70.439drinking behavior trait (VT:0001422)calculated ethanol drink intake rate (CMO:0001615)122871771850386405Rat
7411641Foco19Food consumption QTL 1927.70.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)121120049452308831Rat
7411643Foco20Food consumption QTL 200.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)122598935552308831Rat
5684888Pia42Pristane induced arthritis QTL 42joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)12348941648489416Rat
1331739Hrtrt14Heart rate QTL 143.56232heart pumping trait (VT:2000009)heart rate (CMO:0000002)12138687564Rat
1641928Alcrsp5Alcohol response QTL 5response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)121847304152308831Rat
8552912Pigfal6Plasma insulin-like growth factor 1 level QTL 65blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)121120049752308831Rat
1549829Scl48Serum cholesterol level QTL 485blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)121526424852308831Rat
10059594Kidm46Kidney mass QTL 463.790.025kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)121174352852308831Rat
8552918Pigfal7Plasma insulin-like growth factor 1 level QTL 7blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)121120049452308831Rat
2293684Bmd26Bone mineral density QTL 264.40.0002femur mineral mass (VT:0010011)total volumetric bone mineral density (CMO:0001728)12138635130Rat
70169Eae13Experimental allergic encephalomyelitis QTL 130.032nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis incidence/prevalence measurement (CMO:0001046)122977552242298555Rat
1600386Calcic2Intracellular calcium level QTL 20.001platelet physiology trait (VT:0005464)platelet intracellular calcium level (CMO:0000922)123370043246784661Rat
61404Bw120Body weight QTL 1205.1body mass (VT:0001259)body mass index (BMI) (CMO:0000105)121746497946784661Rat
1556747Calcic1Intracellular calcium level QTL 13.6platelet calcium amount (VT:0010500)platelet intracellular calcium level (CMO:0000922)123370043246784661Rat
1300175Cm5Cardiac mass QTL 53.78heart mass (VT:0007028)heart left ventricle weight to body weight ratio (CMO:0000530)123370043251558799Rat
631829Alc6Alcohol consumption QTL 64.7consumption behavior trait (VT:0002069)ethanol drink intake rate (CMO:0001407)123424347543352593Rat
1331786Kidm11Kidney mass QTL 113.571kidney mass (VT:0002707)right kidney wet weight (CMO:0000082)121618743852308831Rat
8693658Alc33Alcohol consumption QTL 332.10.68drinking behavior trait (VT:0001422)calculated ethanol drink intake rate (CMO:0001615)122871771849212240Rat
2293699Bss49Bone structure and strength QTL 495.610.0001lumbar vertebra size trait (VT:0010518)lumbar vertebra trabecular cross-sectional area (CMO:0001692)121613502952308831Rat
1331761Bp218Blood pressure QTL 2182.973arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)121618743851213550Rat
1331763Wbc2White blood cell count QTL 23.162leukocyte quantity (VT:0000217)total white blood cell count (CMO:0000365)121120049452308831Rat
61416Pia4Pristane induced arthritis QTL 48.4joint integrity trait (VT:0010548)arthritic paw count (CMO:0001460)121874946936488809Rat
7411547Bw129Body weight QTL 1290.001body mass (VT:0001259)body weight gain (CMO:0000420)61120049452308831Rat
7387292Kidm42Kidney mass QTL 423.030.0004kidney mass (VT:0002707)left kidney wet weight (CMO:0000083)12141361854Rat
1300157Rf21Renal function QTL 214.4renal blood flow trait (VT:2000006)absolute change in renal blood flow rate (CMO:0001168)122963663737764351Rat
1298081Cia25Collagen induced arthritis QTL 254.7joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)12274769447747694Rat
2303569Gluco44Glucose level QTL 442blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)121847304152308831Rat
2303575Insul14Insulin level QTL 144blood insulin amount (VT:0001560)blood insulin level (CMO:0000349)12308718048087180Rat
7411588Foco6Food consumption QTL 60.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)121120049452308831Rat
7243862Mcs30Mammary carcinoma susceptibility QTL 308.62mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)12563330650633306Rat
2300186Bmd59Bone mineral density QTL 597.10.0001lumbar vertebra mineral mass (VT:0010511)volumetric bone mineral density (CMO:0001553)121613502952308831Rat
7411597Foco10Food consumption QTL 100.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)121120049452308831Rat


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 4 23 73 30 29 13 64 13 6 181 112 11 60 40 50 16 11 11

Sequence


Ensembl Acc Id: ENSRNOT00000001279
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1235,904,824 - 35,905,747 (-)Ensembl
mRatBN7.2 Ensembl1230,269,096 - 30,269,872 (-)Ensembl
Rnor_6.0 Ensembl1234,003,895 - 34,004,671 (-)Ensembl
RefSeq Acc Id: XM_001070964   ⟹   XP_001070964
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81235,904,822 - 35,905,740 (-)NCBI
mRatBN7.21230,269,021 - 30,269,933 (-)NCBI
Rnor_6.01234,003,856 - 34,004,722 (-)NCBI
Rnor_5.01235,899,583 - 35,900,448 (-)NCBI
RGSC_v3.41231,330,420 - 31,331,196 (-)RGD
Sequence:
Protein Sequences
Protein RefSeqs XP_001070964 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein EDM13544 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000093289
  ENSRNOP00000093289.1
RefSeq Acc Id: XP_001070964   ⟸   XM_001070964
- Sequence:

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:1592278 AgrOrtholog
BioCyc Gene G2FUF-19405 BioCyc
Ensembl Genes ENSRNOG00000000964 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000001279 ENTREZGENE
  ENSRNOT00000001279.6 UniProtKB/TrEMBL
Gene3D-CATH 2.80.10.50 UniProtKB/TrEMBL
InterPro Actin-crosslinking UniProtKB/TrEMBL
  FRG1 UniProtKB/TrEMBL
KEGG Report rno:689484 UniProtKB/TrEMBL
NCBI Gene 689484 ENTREZGENE
PANTHER PROTEIN FRG1 UniProtKB/TrEMBL
  PTHR12928 UniProtKB/TrEMBL
Pfam FRG1 UniProtKB/TrEMBL
PhenoGen Frg1-ps1 PhenoGen
RatGTEx ENSRNOG00000000964 RatGTEx
Superfamily-SCOP SSF50405 UniProtKB/TrEMBL
UniProt A0A8I6AIP8_RAT UniProtKB/TrEMBL
  A6J0V5_RAT UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2024-07-25 Frg1-ps1  FSHD region gene 1, pseudogene 1  Frg1l1  FSHD region gene 1-like 1  Name and Symbol and Type changed (type changed from [protein-coding] to [pseudo]) 629549 APPROVED
2012-10-01 Frg1l1  FSHD region gene 1-like 1  Frg1  FSHD region gene 1  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-07-08 Frg1  FSHD region gene 1  LOC687469  similar to FRG1 protein (FSHD region gene 1 protein)  Data merged from RGD:1585336 1643240 APPROVED
2008-03-06 Frg1  FSHD region gene 1  LOC689484  similar to FRG1 protein (FSHD region gene 1 protein)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2006-11-20 LOC689484  similar to FRG1 protein (FSHD region gene 1 protein)      Symbol and Name status set to provisional 70820 PROVISIONAL
2006-11-19 LOC687469  similar to FRG1 protein (FSHD region gene 1 protein)      Symbol and Name status set to provisional 70820 PROVISIONAL