Gtsf1 (gametocyte specific factor 1) - Rat Genome Database

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Gene: Gtsf1 (gametocyte specific factor 1) Rattus norvegicus
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Symbol: Gtsf1
Name: gametocyte specific factor 1
RGD ID: 1310791
Description: Predicted to enable tRNA binding activity. Predicted to be involved in piRNA-mediated gene silencing by mRNA destabilization and secondary piRNA processing. Predicted to be located in cytoplasm. Predicted to be active in piP-body. Orthologous to human GTSF1 (gametocyte specific factor 1); INTERACTS WITH 6-propyl-2-thiouracil; amitrole; methimazole.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: gametocyte-specific factor 1; LOC315347; MGC156809; RGD1310791; similar to Hypothetical protein 1700006H03Rik
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
GRCr87136,417,793 - 136,436,849 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl7136,417,793 - 136,436,094 (-)EnsemblGRCr8
mRatBN7.27134,539,329 - 134,558,395 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl7134,539,329 - 134,557,424 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx7136,294,670 - 136,312,665 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.07138,524,040 - 138,542,035 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.07138,510,315 - 138,528,272 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.07145,030,139 - 145,049,183 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl7145,029,699 - 145,048,283 (-)Ensemblrn6Rnor6.0
Rnor_5.07142,809,277 - 142,828,312 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.47142,313,804 - 142,330,896 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera7130,963,743 - 130,981,837 (-)NCBICelera
RGSC_v3.17142,393,992 - 142,412,087 (-)NCBI
Cytogenetic Map7q36NCBI
JBrowse:




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

Biological Process

Cellular Component
cytoplasm  (IEA,ISO)
piP-body  (IEA,ISO)

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:12477932   PMID:17919994  


Genomics

Comparative Map Data
Gtsf1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr87136,417,793 - 136,436,849 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl7136,417,793 - 136,436,094 (-)EnsemblGRCr8
mRatBN7.27134,539,329 - 134,558,395 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl7134,539,329 - 134,557,424 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx7136,294,670 - 136,312,665 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.07138,524,040 - 138,542,035 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.07138,510,315 - 138,528,272 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.07145,030,139 - 145,049,183 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl7145,029,699 - 145,048,283 (-)Ensemblrn6Rnor6.0
Rnor_5.07142,809,277 - 142,828,312 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.47142,313,804 - 142,330,896 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera7130,963,743 - 130,981,837 (-)NCBICelera
RGSC_v3.17142,393,992 - 142,412,087 (-)NCBI
Cytogenetic Map7q36NCBI
GTSF1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381254,455,957 - 54,473,602 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1254,455,950 - 54,473,602 (-)Ensemblhg38GRCh38
GRCh371254,849,741 - 54,867,386 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361253,136,011 - 53,151,328 (-)NCBIBuild 36Build 36hg18NCBI36
Celera1254,501,575 - 54,519,224 (-)NCBICelera
Cytogenetic Map12q13.13NCBI
HuRef1251,888,747 - 51,906,156 (-)NCBIHuRef
CHM1_11254,816,454 - 54,834,114 (-)NCBICHM1_1
T2T-CHM13v2.01254,422,534 - 54,440,179 (-)NCBIT2T-CHM13v2.0
Gtsf1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm3915103,310,885 - 103,338,872 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl15103,310,832 - 103,338,897 (-)EnsemblGRCm39 EnsemblGRCm39
GRCm3815103,402,458 - 103,430,445 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl15103,402,405 - 103,430,470 (-)Ensemblmm10GRCm38
MGSCv3715103,232,889 - 103,260,858 (-)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv3615103,230,495 - 103,258,004 (-)NCBIMGSCv36mm8
Celera15105,568,470 - 105,588,575 (-)NCBICelera
Cytogenetic Map15F3NCBI
cM Map1558.93NCBI
Gtsf1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554581,701,072 - 1,718,463 (-)Ensembl
ChiLan1.0NW_0049554581,701,072 - 1,718,463 (-)NCBIChiLan1.0ChiLan1.0
GTSF1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21039,698,811 - 39,719,546 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11239,695,580 - 39,714,738 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01234,273,008 - 34,290,755 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11235,000,809 - 35,018,136 (+)NCBIPanPan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1235,001,805 - 35,018,134 (+)EnsemblpanPan2panpan1.1
GTSF1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.127858,939 - 875,873 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2745,379,127 - 45,396,058 (-)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.027856,082 - 872,997 (+)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl27855,832 - 873,000 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.127848,387 - 865,317 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.027857,349 - 874,268 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02745,783,024 - 45,799,956 (-)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
Gtsf1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494561,500,546 - 61,517,189 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_00493651211,647,972 - 11,662,303 (-)EnsemblSpeTri2.0 Ensembl
SpeTri2.0NW_00493651211,647,972 - 11,662,139 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
GTSF1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl519,645,135 - 19,661,599 (-)EnsemblsusScr11Sscrofa11.1
Sscrofa11.1519,639,326 - 19,661,773 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2520,497,276 - 20,516,313 (-)NCBISscrofa10.2Sscrofa10.2susScr3
GTSF1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11150,571,003 - 50,589,285 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1150,575,689 - 50,580,555 (-)EnsemblChlSab1.1 EnsemblchlSab2Vervet-AGM
Vero_WHO_p1.0NW_023666037195,448,080 - 195,466,452 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Gtsf1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046249042,490,256 - 2,507,767 (-)EnsemblHetGla_female_1.0 EnsemblhetGla2HetGla_female_1.0 Ensembl
HetGla 1.0NW_0046249042,489,040 - 2,508,028 (-)NCBIHetGla 1.0HetGla 1.0hetGla2
Gtsf1
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v11259,662,138 - 259,680,088 (+)NCBIRrattus_CSIRO_v1

miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:13
Count of miRNA genes:13
Interacting mature miRNAs:13
Transcripts:ENSRNOT00000055275
Prediction methods: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
1354582Stl11Serum triglyceride level QTL 113.42blood triglyceride amount (VT:0002644)serum triglyceride level (CMO:0000360)7121393075137014596Rat
634331Pia17Pristane induced arthritis QTL 174.7joint integrity trait (VT:0010548)arthritic paw count (CMO:0001460)7132099939137014596Rat
731176Glom5Glomerulus QTL 52.50.0035kidney glomerulus morphology trait (VT:0005325)count of superficial glomeruli not directly contacting the kidney surface (CMO:0001002)798549867137014596Rat
61428Scl3Serum cholesterol level QTL 33.2blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)7100548246137014596Rat
61397Bw17Body weight QTL 176.3body mass (VT:0001259)body weight (CMO:0000012)795485047137014596Rat
1358914Bp266Blood pressure QTL 266arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)7115313999136544683Rat
1549899Stresp8Stress response QTL 84.370.0008stress-related behavior trait (VT:0010451)defensive burying duration (CMO:0001961)792362341137014596Rat
1358891Bp265Blood pressure QTL 2652.21arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)771827901136544683Rat
1357339Stl14Serum triglyceride level QTL 143.450.0001blood triglyceride amount (VT:0002644)serum triglyceride level (CMO:0000360)7135371291137014596Rat

Markers in Region
Gtsf1  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.27134,546,414 - 134,547,741 (+)MAPPERmRatBN7.2
Rnor_6.07145,037,224 - 145,038,550NCBIRnor6.0
Rnor_5.07142,816,362 - 142,817,688UniSTSRnor5.0
RGSC_v3.47142,320,889 - 142,322,215UniSTSRGSC3.4
Celera7130,970,828 - 130,972,154UniSTS
Cytogenetic Map7q36UniSTS


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
7 7 21 85 69 73 46 50 46 6 175 93 6 66 25 58 27 2 2

Sequence


Ensembl Acc Id: ENSRNOT00000055275   ⟹   ENSRNOP00000052150
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl7136,417,793 - 136,436,094 (-)Ensembl
mRatBN7.2 Ensembl7134,539,329 - 134,557,424 (-)Ensembl
Rnor_6.0 Ensembl7145,029,699 - 145,048,283 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000098994   ⟹   ENSRNOP00000095019
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl7134,543,480 - 134,554,233 (-)Ensembl
RefSeq Acc Id: NM_001079707   ⟹   NP_001073175
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr87136,417,793 - 136,435,884 (-)NCBI
mRatBN7.27134,539,329 - 134,557,424 (-)NCBI
Rnor_6.07145,030,139 - 145,048,233 (-)NCBI
Rnor_5.07142,809,277 - 142,828,312 (-)NCBI
RGSC_v3.47142,313,804 - 142,330,896 (-)RGD
Celera7130,963,743 - 130,981,837 (-)NCBI
Sequence:
RefSeq Acc Id: XM_039079353   ⟹   XP_038935281
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr87136,417,793 - 136,435,962 (-)NCBI
mRatBN7.27134,539,329 - 134,557,487 (-)NCBI
RefSeq Acc Id: XM_039079354   ⟹   XP_038935282
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr87136,417,793 - 136,435,948 (-)NCBI
mRatBN7.27134,539,329 - 134,557,492 (-)NCBI
RefSeq Acc Id: XM_039079355   ⟹   XP_038935283
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr87136,417,793 - 136,436,849 (-)NCBI
mRatBN7.27134,539,329 - 134,558,395 (-)NCBI
RefSeq Acc Id: XM_063263686   ⟹   XP_063119756
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr87136,417,793 - 136,435,943 (-)NCBI
RefSeq Acc Id: NP_001073175   ⟸   NM_001079707
- UniProtKB: A1A5S0 (UniProtKB/TrEMBL),   F7FF05 (UniProtKB/TrEMBL),   A0A9K3Y7D9 (UniProtKB/TrEMBL),   A0A8I6AM77 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000052150   ⟸   ENSRNOT00000055275
RefSeq Acc Id: XP_038935283   ⟸   XM_039079355
- Peptide Label: isoform X4
- UniProtKB: A0A8I6AM77 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038935282   ⟸   XM_039079354
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038935281   ⟸   XM_039079353
- Peptide Label: isoform X1
Ensembl Acc Id: ENSRNOP00000095019   ⟸   ENSRNOT00000098994
RefSeq Acc Id: XP_063119756   ⟸   XM_063263686
- Peptide Label: isoform X3
- UniProtKB: A0A8I6AM77 (UniProtKB/TrEMBL)
Protein Domains
CHHC U11-48K-type

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-F7FF05-F1-model_v2 AlphaFold F7FF05 1-189 view protein structure

Transcriptome

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

Promoters
RGD ID:13695716
Promoter ID:EPDNEW_R6241
Type:initiation region
Name:Gtsf1_1
Description:gametocyte specific factor 1
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_6.07145,048,272 - 145,048,332EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1310791 AgrOrtholog
BioCyc Gene G2FUF-31875 BioCyc
Ensembl Genes ENSRNOG00000036831 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000055275 ENTREZGENE
  ENSRNOT00000055275.5 UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7134533 IMAGE-MGC_LOAD
InterPro TRM13/UPF0224_CHHC_Znf_dom UniProtKB/TrEMBL
  UPF0224_FAM112_RNA_Proc UniProtKB/TrEMBL
  Znf_C2H2_sf UniProtKB/TrEMBL
KEGG Report rno:315347 UniProtKB/TrEMBL
MGC_CLONE MGC:156809 IMAGE-MGC_LOAD
NCBI Gene 315347 ENTREZGENE
PANTHER PTHR21402:SF9 UniProtKB/TrEMBL
  UNCHARACTERIZED UniProtKB/TrEMBL
Pfam UPF0224 UniProtKB/TrEMBL
PhenoGen Gtsf1 PhenoGen
PROSITE ZF_CHHC_U11_48K UniProtKB/TrEMBL
RatGTEx ENSRNOG00000036831 RatGTEx
Superfamily-SCOP SSF57667 UniProtKB/TrEMBL
UniProt A0A8I6AM77 ENTREZGENE
  A0A9K3Y7D9 ENTREZGENE, UniProtKB/TrEMBL
  A1A5S0 ENTREZGENE, UniProtKB/TrEMBL
  F7FF05 ENTREZGENE
UniProt Secondary F7FF05 UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-03-07 Gtsf1  gametocyte specific factor 1  RGD1310791_predicted  similar to Hypothetical protein 1700006H03Rik (predicted)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2005-01-20 RGD1310791_predicted  similar to Hypothetical protein 1700006H03Rik (predicted)  LOC315347_predicted    Symbol and Name status set to approved 1331353 APPROVED
2005-01-12 LOC315347_predicted  similar to Hypothetical protein 1700006H03Rik (predicted)      Symbol and Name status set to provisional 70820 PROVISIONAL