Setx (senataxin) - Rat Genome Database

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Gene: Setx (senataxin) Ictidomys tridecemlineatus
Analyze
Symbol: Setx
Name: senataxin
RGD ID: 12538521
Description: ENCODES a protein that exhibits helicase activity (inferred); identical protein binding (inferred); transcription termination site sequence-specific DNA binding (inferred); INVOLVED IN circadian rhythm (ortholog); termination of RNA polymerase II transcription (ortholog); ASSOCIATED WITH amyotrophic lateral sclerosis (ortholog); amyotrophic lateral sclerosis type 1 (ortholog); amyotrophic lateral sclerosis type 4 (ortholog); FOUND IN axon (inferred); cytoplasm (inferred); growth cone (inferred)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: probable helicase senataxin
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Dog
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: SpeTri2.0 - Squirrel SpeTri2.0 Assembly
Position:
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024404947199,087,545 - 199,175,658 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_00493648718,855,744 - 18,944,158 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_00493648718,858,384 - 18,945,253 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

References
Additional References at PubMed
PMID:22301074   PMID:30032202  


Genomics

Comparative Map Data
Setx
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024404947199,087,545 - 199,175,658 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_00493648718,855,744 - 18,944,158 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_00493648718,858,384 - 18,945,253 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
SETX
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh389132,261,356 - 132,356,744 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl9132,261,356 - 132,354,986 (-)EnsemblGRCh38hg38GRCh38
GRCh379135,136,743 - 135,230,373 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 369134,126,648 - 134,220,193 (-)NCBINCBI36Build 36hg18NCBI36
Build 349132,168,836 - 132,259,926NCBI
Celera9105,678,763 - 105,772,221 (-)NCBICelera
Cytogenetic Map9q34.13NCBI
HuRef9104,630,757 - 104,723,804 (-)NCBIHuRef
CHM1_19135,286,879 - 135,380,398 (-)NCBICHM1_1
T2T-CHM13v2.09144,475,833 - 144,571,334 (-)NCBIT2T-CHM13v2.0
Setx
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39229,013,600 - 29,072,483 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl229,014,193 - 29,072,483 (+)EnsemblGRCm39 Ensembl
GRCm38229,123,588 - 29,182,471 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl229,124,181 - 29,182,471 (+)EnsemblGRCm38mm10GRCm38
MGSCv37228,980,512 - 29,037,991 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36228,976,093 - 29,004,480 (+)NCBIMGSCv36mm8
Celera228,830,977 - 28,888,543 (+)NCBICelera
Cytogenetic Map2A3- BNCBI
cM Map219.45NCBI
Setx
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8332,825,771 - 32,878,740 (+)NCBIGRCr8
mRatBN7.2312,428,091 - 12,480,801 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl312,427,635 - 12,480,803 (+)EnsemblmRatBN7.2 Ensembl
Rnor_6.037,680,430 - 7,731,815 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl37,686,503 - 7,730,539 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0313,029,002 - 13,080,379 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.438,113,749 - 8,156,463 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera37,210,020 - 7,259,874 (+)NCBICelera
Cytogenetic Map3p12NCBI
Setx
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049555131,718,377 - 1,777,021 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049555131,718,432 - 1,776,133 (-)NCBIChiLan1.0ChiLan1.0
SETX
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2116,999,456 - 7,095,610 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan197,000,759 - 7,097,946 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v09103,381,356 - 103,474,902 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.19132,016,513 - 132,109,665 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl9132,016,767 - 132,109,665 (-)Ensemblpanpan1.1panPan2
SETX
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1951,900,004 - 51,980,694 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl951,901,233 - 51,978,833 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha951,164,800 - 51,245,022 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0952,793,044 - 52,873,500 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl952,793,516 - 52,871,521 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1951,573,459 - 51,653,339 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0951,897,710 - 51,978,318 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0951,983,718 - 52,064,342 (+)NCBIUU_Cfam_GSD_1.0
SETX
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1272,095,358 - 272,170,747 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11272,093,449 - 272,170,857 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21306,152,306 - 306,230,231 (-)NCBISscrofa10.2Sscrofa10.2susScr3
SETX
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1125,773,122 - 5,872,372 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl125,773,165 - 5,875,481 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_0236660799,727,751 - 9,825,267 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Setx
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046247603,955,494 - 4,007,610 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046247603,932,213 - 4,007,290 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2


Expression

RNA-SEQ Expression


Sequence


Ensembl Acc Id: ENSSTOT00000020450   ⟹   ENSSTOP00000022440
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
SpeTri2.0 EnsemblNW_00493648718,855,744 - 18,943,237 (-)Ensembl
Ensembl Acc Id: ENSSTOT00000025316   ⟹   ENSSTOP00000019828
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
SpeTri2.0 EnsemblNW_00493648718,855,744 - 18,943,237 (-)Ensembl
Ensembl Acc Id: ENSSTOT00000040658   ⟹   ENSSTOP00000027055
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
SpeTri2.0 EnsemblNW_00493648718,930,473 - 18,944,158 (-)Ensembl
RefSeq Acc Id: XM_005321103   ⟹   XP_005321160
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
HiC_Itri_2NW_024404947199,087,545 - 199,175,506 (-)NCBI
SpeTri2.0NW_00493648718,858,384 - 18,943,756 (-)NCBI
Sequence:
RefSeq Acc Id: XM_021723658   ⟹   XP_021579333
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
HiC_Itri_2NW_024404947199,087,545 - 199,175,356 (-)NCBI
SpeTri2.0NW_00493648718,858,384 - 18,943,753 (-)NCBI
Sequence:
RefSeq Acc Id: XM_021723659   ⟹   XP_021579334
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
HiC_Itri_2NW_024404947199,087,545 - 199,175,356 (-)NCBI
SpeTri2.0NW_00493648718,858,384 - 18,943,753 (-)NCBI
Sequence:
RefSeq Acc Id: XM_021723660   ⟹   XP_021579335
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
HiC_Itri_2NW_024404947199,087,545 - 199,175,658 (-)NCBI
SpeTri2.0NW_00493648718,858,384 - 18,944,124 (-)NCBI
Sequence:
RefSeq Acc Id: XM_021723661   ⟹   XP_021579336
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
HiC_Itri_2NW_024404947199,087,545 - 199,175,633 (-)NCBI
SpeTri2.0NW_00493648718,858,384 - 18,944,115 (-)NCBI
Sequence:
RefSeq Acc Id: XM_021723664   ⟹   XP_021579339
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
HiC_Itri_2NW_024404947199,087,545 - 199,175,356 (-)NCBI
SpeTri2.0NW_00493648718,858,384 - 18,943,753 (-)NCBI
Sequence:
RefSeq Acc Id: XM_040286530   ⟹   XP_040142464
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
HiC_Itri_2NW_024404947199,087,545 - 199,175,356 (-)NCBI
RefSeq Acc Id: XR_005734175
Type: NON-CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
HiC_Itri_2NW_024404947199,087,545 - 199,175,356 (-)NCBI
RefSeq Acc Id: XR_005734176
Type: NON-CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
HiC_Itri_2NW_024404947199,107,577 - 199,175,497 (-)NCBI
RefSeq Acc Id: XP_005321160   ⟸   XM_005321103
- Peptide Label: isoform X2
- UniProtKB: I3NDJ3 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_021579335   ⟸   XM_021723660
- Peptide Label: isoform X1
- UniProtKB: I3N632 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_021579336   ⟸   XM_021723661
- Peptide Label: isoform X1
- UniProtKB: I3N632 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_021579333   ⟸   XM_021723658
- Peptide Label: isoform X1
- UniProtKB: I3N632 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_021579334   ⟸   XM_021723659
- Peptide Label: isoform X1
- UniProtKB: I3N632 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_021579339   ⟸   XM_021723664
- Peptide Label: isoform X3
- Sequence:
RefSeq Acc Id: XP_040142464   ⟸   XM_040286530
- Peptide Label: isoform X4
Ensembl Acc Id: ENSSTOP00000027055   ⟸   ENSSTOT00000040658
Ensembl Acc Id: ENSSTOP00000022440   ⟸   ENSSTOT00000020450
Ensembl Acc Id: ENSSTOP00000019828   ⟸   ENSSTOT00000025316
Protein Domains
DNA2/NAM7 helicase helicase   DNA2/NAM7 helicase-like C-terminal


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSSTOG00000021600 Ensembl, UniProtKB/TrEMBL
Ensembl Transcript ENSSTOT00000020450.2 UniProtKB/TrEMBL
  ENSSTOT00000025316.2 UniProtKB/TrEMBL
  ENSSTOT00000040658.1 UniProtKB/TrEMBL
Gene3D-CATH 3.40.50.300 UniProtKB/TrEMBL
InterPro DNA2/NAM7-like UniProtKB/TrEMBL
  DNA2/NAM7-like_C UniProtKB/TrEMBL
  DNA2/NAM7_AAA_11 UniProtKB/TrEMBL
  P-loop_NTPase UniProtKB/TrEMBL
  SF1_C_Upf1 UniProtKB/TrEMBL
NCBI Gene Setx ENTREZGENE
PANTHER HELICASE SENATAXIN-RELATED UniProtKB/TrEMBL
  PTHR10887 UniProtKB/TrEMBL
Pfam AAA_11 UniProtKB/TrEMBL
  AAA_12 UniProtKB/TrEMBL
Superfamily-SCOP SSF52540 UniProtKB/TrEMBL
UniProt A0A287D0N1_ICTTR UniProtKB/TrEMBL
  I3N632 ENTREZGENE, UniProtKB/TrEMBL
  I3NDJ3 ENTREZGENE, UniProtKB/TrEMBL