Fsaf1 (40S small subunit processome assembly factor 1) - Rat Genome Database

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Gene: Fsaf1 (40S small subunit processome assembly factor 1) Rattus norvegicus
Analyze
Symbol: Fsaf1 (Ensembl: C19h1orf131)
Name: 40S small subunit processome assembly factor 1 (Ensembl:similar to human chromosome 1 open reading frame 131)
RGD ID: 1562218
Description: Predicted to be involved in ribosomal small subunit biogenesis. Predicted to be located in chromosome. Predicted to be part of small-subunit processome. Orthologous to human FSAF1 (40S small subunit processome assembly factor 1); INTERACTS WITH 2,2',4,4'-Tetrabromodiphenyl ether; 2,3,7,8-tetrachlorodibenzodioxine; bisphenol A.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: C19h1orf131; hypothetical protein LOC292100; MGC124748; RGD1562218; similar to human chromosome 1 open reading frame 131; similar to RIKEN cDNA 0610039J04; uncharacterized protein C1orf131 homolog
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
GRCr81969,705,313 - 69,719,894 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl1969,705,321 - 69,720,093 (-)EnsemblGRCr8
mRatBN7.21952,807,932 - 52,822,259 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1952,807,934 - 52,822,267 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx1959,592,652 - 59,606,984 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01960,443,704 - 60,458,036 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01962,519,112 - 62,533,444 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.01957,600,231 - 57,614,558 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1957,600,239 - 57,614,558 (-)Ensemblrn6Rnor6.0
Rnor_5.01968,313,471 - 68,327,797 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.41955,019,196 - 55,033,524 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera1952,175,064 - 52,189,398 (-)NCBICelera
Cytogenetic Map19q12NCBI
JBrowse:




Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component
chromosome  (IEA,ISO,ISS)
nucleolus  (IEA)
small-subunit processome  (IEA,ISO,ISS)

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
2. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
3. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, etal., Proc Natl Acad Sci U S A. 2002 Dec 24;99(26):16899-903. Epub 2002 Dec 11.
Additional References at PubMed
PMID:20813266   PMID:22658674   PMID:22681889  


Genomics

Comparative Map Data
Fsaf1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81969,705,313 - 69,719,894 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl1969,705,321 - 69,720,093 (-)EnsemblGRCr8
mRatBN7.21952,807,932 - 52,822,259 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1952,807,934 - 52,822,267 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx1959,592,652 - 59,606,984 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01960,443,704 - 60,458,036 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01962,519,112 - 62,533,444 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.01957,600,231 - 57,614,558 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1957,600,239 - 57,614,558 (-)Ensemblrn6Rnor6.0
Rnor_5.01968,313,471 - 68,327,797 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.41955,019,196 - 55,033,524 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera1952,175,064 - 52,189,398 (-)NCBICelera
Cytogenetic Map19q12NCBI
FSAF1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381231,223,765 - 231,241,175 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1231,223,763 - 231,241,187 (-)Ensemblhg38GRCh38
GRCh371231,359,511 - 231,376,921 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361229,426,132 - 229,443,547 (-)NCBIBuild 36Build 36hg18NCBI36
Celera1204,624,375 - 204,641,792 (-)NCBICelera
Cytogenetic Map1q42.2NCBI
HuRef1201,842,894 - 201,860,311 (-)NCBIHuRef
CHM1_11232,633,160 - 232,650,575 (-)NCBICHM1_1
T2T-CHM13v2.01230,607,028 - 230,624,438 (-)NCBIT2T-CHM13v2.0
Fsaf1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm398125,566,094 - 125,589,768 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl8125,563,684 - 125,589,859 (-)EnsemblGRCm39 EnsemblGRCm39
GRCm388124,839,355 - 124,863,029 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl8124,836,945 - 124,863,120 (-)Ensemblmm10GRCm38
MGSCv378127,363,255 - 127,386,929 (-)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv368127,725,447 - 127,749,081 (-)NCBIMGSCv36mm8
Celera8129,152,198 - 129,171,504 (-)NCBICelera
Cytogenetic Map8E2NCBI
cM Map872.81NCBI
Fsaf1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554927,521,604 - 7,536,744 (+)Ensembl
ChiLan1.0NW_0049554927,519,800 - 7,535,234 (+)NCBIChiLan1.0ChiLan1.0
FSAF1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2117,961,789 - 17,979,221 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1118,157,437 - 18,174,869 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01206,776,710 - 206,794,199 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11211,801,832 - 211,819,280 (-)NCBIPanPan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1211,801,832 - 211,819,280 (-)EnsemblpanPan2panpan1.1
C4H1orf131
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.148,189,749 - 8,204,428 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl48,189,741 - 8,204,433 (+)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_Tasha48,182,082 - 8,196,769 (+)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.048,215,213 - 8,229,900 (+)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl48,215,214 - 8,229,905 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.148,218,727 - 8,233,385 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.048,340,710 - 8,355,393 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.048,569,302 - 8,583,999 (+)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
Fsaf1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440934443,275,697 - 43,286,696 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_00493648419,445,013 - 19,451,464 (+)EnsemblSpeTri2.0 Ensembl
SpeTri2.0NW_00493648419,440,923 - 19,451,922 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
C14H1orf131
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1459,240,514 - 59,258,838 (+)EnsemblsusScr11Sscrofa11.1
Sscrofa11.11459,240,343 - 59,257,168 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21463,904,312 - 63,919,185 (+)NCBISscrofa10.2Sscrofa10.2susScr3
FSAF1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12568,500,539 - 68,518,646 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl2568,500,233 - 68,519,096 (-)EnsemblChlSab1.1 EnsemblchlSab2Vervet-AGM
Vero_WHO_p1.0NW_02366605570,407,896 - 70,426,046 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Fsaf1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462477518,443,321 - 18,456,961 (+)EnsemblHetGla_female_1.0 EnsemblhetGla2HetGla_female_1.0 Ensembl
HetGla 1.0NW_00462477518,443,247 - 18,457,201 (+)NCBIHetGla 1.0HetGla 1.0hetGla2
Fsaf1
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v11744,362,077 - 44,375,325 (-)NCBIRrattus_CSIRO_v1

miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:901
Count of miRNA genes:324
Interacting mature miRNAs:431
Transcripts:ENSRNOT00000025948
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
2313395Anxrr26Anxiety related response QTL 26aggression-related behavior trait (VT:0015014)tameness/aggressiveness composite score (CMO:0002136)194438513474246245Rat
1578764Stresp19Stress response QTL 193.60.001blood renin amount (VT:0003349)plasma renin activity level (CMO:0000116)193253961574246245Rat
5135224Leukc1Leukocyte quantity QTL 1eosinophil quantity (VT:0002602)blood eosinophil count (CMO:0000033)196124916174246245Rat
1331788Rf45Renal function QTL 452.818kidney blood vessel physiology trait (VT:0100012)absolute change in renal blood flow rate (CMO:0001168)193177788874246245Rat
631840Niddm38Non-insulin dependent diabetes mellitus QTL 383.86blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)191032907674246245Rat
724546Kidm3Kidney mass QTL 33.1kidney mass (VT:0002707)calculated kidney weight (CMO:0000160)194622677874246245Rat
7247442Uae39Urinary albumin excretion QTL 39urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)19219431774246245Rat
7411549Bw130Body weight QTL 13050.001body mass (VT:0001259)body weight gain (CMO:0000420)193236531174246245Rat
1549835Tcas7Tongue tumor susceptibility QTL 70.001tongue integrity trait (VT:0010553)squamous cell carcinoma of the head and neck tumor number (CMO:0001876)194172254674246245Rat
1331737Uae29Urinary albumin excretion QTL 295.5urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)193628974246245Rat
724566Uae12Urinary albumin excretion QTL 125urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)19219431774246245Rat
61423Cia14Collagen induced arthritis QTL 143joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)191083361874246245Rat

Markers in Region
RH131133  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21952,810,794 - 52,811,005 (+)MAPPERmRatBN7.2
Rnor_6.01957,603,094 - 57,603,304NCBIRnor6.0
Rnor_5.01968,316,334 - 68,316,544UniSTSRnor5.0
RGSC_v3.41955,022,059 - 55,022,269UniSTSRGSC3.4
Celera1952,177,927 - 52,178,137UniSTS
Cytogenetic Map19q12UniSTS
RH141356  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21952,808,074 - 52,808,279 (+)MAPPERmRatBN7.2
Rnor_6.01957,600,374 - 57,600,578NCBIRnor6.0
Rnor_5.01968,313,614 - 68,313,818UniSTSRnor5.0
RGSC_v3.41955,019,339 - 55,019,543UniSTSRGSC3.4
Celera1952,175,207 - 52,175,411UniSTS
RH 3.4 Map19719.0UniSTS
Cytogenetic Map19q12UniSTS


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 67 164 91 90 59 92 59 6 356 192 11 143 81 92 31 17 17

Sequence


Ensembl Acc Id: ENSRNOT00000025948   ⟹   ENSRNOP00000025948
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1969,705,321 - 69,720,093 (-)Ensembl
mRatBN7.2 Ensembl1952,807,934 - 52,822,267 (-)Ensembl
Rnor_6.0 Ensembl1957,600,239 - 57,614,558 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000106115   ⟹   ENSRNOP00000094915
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1952,807,934 - 52,822,266 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000115093   ⟹   ENSRNOP00000089311
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1952,810,402 - 52,822,252 (-)Ensembl
RefSeq Acc Id: NM_001034919   ⟹   NP_001030091
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81969,705,313 - 69,719,640 (-)NCBI
mRatBN7.21952,807,932 - 52,822,259 (-)NCBI
Rnor_6.01957,600,231 - 57,614,558 (-)NCBI
Rnor_5.01968,313,471 - 68,327,797 (-)NCBI
RGSC_v3.41955,019,196 - 55,033,524 (-)RGD
Celera1952,175,064 - 52,189,398 (-)RGD
Sequence:
RefSeq Acc Id: XM_063277958   ⟹   XP_063134028
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81969,709,070 - 69,719,894 (-)NCBI
Protein Sequences
Protein RefSeqs NP_001030091 (Get FASTA)   NCBI Sequence Viewer  
  XP_063134028 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAI05748 (Get FASTA)   NCBI Sequence Viewer  
  EDL96742 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000025948.5
GenBank Protein Q3KRF3 (Get FASTA)   NCBI Sequence Viewer  
RefSeq Acc Id: NP_001030091   ⟸   NM_001034919
- UniProtKB: Q3KRF3 (UniProtKB/Swiss-Prot),   A6KJ20 (UniProtKB/TrEMBL),   A0A8I6AKP9 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000025948   ⟸   ENSRNOT00000025948
Ensembl Acc Id: ENSRNOP00000089311   ⟸   ENSRNOT00000115093
Ensembl Acc Id: ENSRNOP00000094915   ⟸   ENSRNOT00000106115
RefSeq Acc Id: XP_063134028   ⟸   XM_063277958
- Peptide Label: isoform X1

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q3KRF3-F1-model_v2 AlphaFold Q3KRF3 1-282 view protein structure

Transcriptome

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

Promoters
RGD ID:13701241
Promoter ID:EPDNEW_R11764
Type:multiple initiation site
Name:RGD1562218_1
Description:similar to RIKEN cDNA 0610039J04
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_6.01957,614,558 - 57,614,618EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1562218 AgrOrtholog
BioCyc Gene G2FUF-5229 BioCyc
Ensembl Genes ENSRNOG00000019169 Ensembl, UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000025948.6 UniProtKB/Swiss-Prot
IMAGE_CLONE IMAGE:5597965 IMAGE-MGC_LOAD
InterPro DUF4602 UniProtKB/Swiss-Prot
  SSU_Processome_Comp UniProtKB/Swiss-Prot
KEGG Report rno:292100 UniProtKB/Swiss-Prot
MGC_CLONE MGC:124748 IMAGE-MGC_LOAD
NCBI Gene 292100 ENTREZGENE
PANTHER UNCHARACTERIZED UniProtKB/Swiss-Prot
  ZGC:194224 UniProtKB/Swiss-Prot
Pfam DUF4602 UniProtKB/Swiss-Prot
PhenoGen Fsaf1 PhenoGen
RatGTEx ENSRNOG00000019169 RatGTEx
UniProt A0A8I6AKP9 ENTREZGENE
  A6KJ20 ENTREZGENE, UniProtKB/TrEMBL
  CA131_RAT UniProtKB/Swiss-Prot, ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2024-11-01 Fsaf1  40S small subunit processome assembly factor 1  C19h1orf131  similar to human chromosome 1 open reading frame 131  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2022-06-23 C19h1orf131  similar to human chromosome 1 open reading frame 131  RGD1562218  similar to RIKEN cDNA 0610039J04  Name and Symbol changed 629549 APPROVED
2006-03-30 RGD1562218  similar to RIKEN cDNA 0610039J04  MGC124748    Symbol updated 1299863 APPROVED
2006-02-09 MGC124748  similar to RIKEN cDNA 0610039J04      Symbol and Name status set to provisional 70820 PROVISIONAL