Setsip (SET like protein) - Rat Genome Database

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Gene: Setsip (SET like protein) Rattus norvegicus
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Symbol: Setsip
Name: SET like protein
RGD ID: 1307467
Description: Predicted to enable chromatin binding activity and histone binding activity. Predicted to be involved in endothelial cell differentiation and positive regulation of transcription by RNA polymerase II. Predicted to be located in endoplasmic reticulum and perinuclear region of cytoplasm. Predicted to be active in chromatin and nucleus. Human ortholog(s) of this gene implicated in autosomal dominant intellectual developmental disorder 58. Orthologous to several human genes including SET (SET nuclear proto-oncogene); INTERACTS WITH acetamide; bisphenol A; thioacetamide.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: Ab1-115; I-2PP2A; liver regeneration-related protein LRRGR00002; LOC307947; phosphatase 2A inhibitor I2PP2A; Set; SET nuclear oncogene; SET nuclear proto-oncogene; SET translocation; TAF-I; template-activating factor I
RGD Orthologs
Human
Bonobo
Dog
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81970,458,604 - 70,460,122 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl1970,458,522 - 70,461,162 (+)EnsemblGRCr8
mRatBN7.21953,561,262 - 53,562,780 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1953,561,190 - 53,563,819 (+)EnsemblmRatBN7.2
Rnor_6.01958,420,635 - 58,422,153 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1958,419,961 - 58,421,504 (+)Ensemblrn6Rnor6.0
Rnor_5.01969,119,722 - 69,121,240 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.41955,797,060 - 55,798,578 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera1952,922,285 - 52,923,803 (+)NCBICelera
RGSC_v3.11955,801,940 - 55,803,459 (+)NCBI
Cytogenetic Map19q12NCBI
JBrowse:




Disease Annotations     Click to see Annotation Detail View

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

Biological Process

Cellular Component
chromatin  (IBA)
cytoplasm  (IEA,ISO,ISS)
cytosol  (IEA)
endoplasmic reticulum  (IEA,ISS)
lipid droplet  (ISO)
nucleoplasm  (IEA,ISO)
nucleus  (IBA,IEA,ISO)
perinuclear region of cytoplasm  (ISS)

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. Rat ISS GO annotations from GOA human gene data--August 2006 GOA data from the GO Consortium
3. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
4. Synaptotagmin 11 interacts with components of the RNA-induced silencing complex RISC in clonal pancreatic beta-cells. Milochau A, etal., FEBS Lett. 2014 Jun 27;588(14):2217-22. doi: 10.1016/j.febslet.2014.05.031. Epub 2014 May 29.
5. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:7508204   PMID:8889548   PMID:10715114   PMID:10716735   PMID:11078917   PMID:11555662   PMID:11909973   PMID:12477932   PMID:12524539   PMID:16162853   PMID:16396499   PMID:16791210  
PMID:17065150   PMID:18374643   PMID:19343227   PMID:20651003   PMID:23233674  


Genomics

Comparative Map Data
Setsip
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81970,458,604 - 70,460,122 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl1970,458,522 - 70,461,162 (+)EnsemblGRCr8
mRatBN7.21953,561,262 - 53,562,780 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1953,561,190 - 53,563,819 (+)EnsemblmRatBN7.2
Rnor_6.01958,420,635 - 58,422,153 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1958,419,961 - 58,421,504 (+)Ensemblrn6Rnor6.0
Rnor_5.01969,119,722 - 69,121,240 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.41955,797,060 - 55,798,578 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera1952,922,285 - 52,923,803 (+)NCBICelera
RGSC_v3.11955,801,940 - 55,803,459 (+)NCBI
Cytogenetic Map19q12NCBI
SETSIP
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38192,074,533 - 92,075,411 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl192,074,533 - 92,075,411 (-)Ensemblhg38GRCh38
GRCh37192,540,090 - 92,540,968 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36192,311,800 - 92,313,616 (-)NCBIBuild 36Build 36hg18NCBI36
Celera190,786,534 - 90,787,409 (-)NCBICelera
Cytogenetic Map1p22.1ENTREZGENE
HuRef190,660,347 - 90,661,222 (-)NCBIHuRef
CHM1_1192,654,917 - 92,655,792 (-)NCBICHM1_1
T2T-CHM13v2.0191,919,389 - 91,920,267 (-)NCBIT2T-CHM13v2.0
SET
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21110,654,526 - 10,675,049 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1910,656,876 - 10,677,399 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0999,806,876 - 99,819,825 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.19128,473,334 - 128,486,295 (+)NCBIPanPan1.1PanPan1.1panPan2
PanPan1.1 Ensembl9128,473,806 - 128,484,563 (+)EnsemblpanPan2panpan1.1
SET
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1954,896,464 - 54,907,698 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha954,091,882 - 54,098,081 (-)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.0955,817,522 - 55,828,773 (-)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl955,817,525 - 55,840,176 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1954,578,083 - 54,584,281 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0954,890,770 - 54,896,963 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0954,984,276 - 54,990,463 (-)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
SET
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1129,446,265 - 9,453,991 (-)NCBIChlSab1.1ChlSab1.1chlSab2
Vero_WHO_p1.0NW_0236660967,724 - 21,521 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Set
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046247606,293,452 - 6,304,237 (-)NCBIHetGla 1.0HetGla 1.0hetGla2

miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:224
Count of miRNA genes:152
Interacting mature miRNAs:161
Transcripts:ENSRNOT00000051397
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


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
22 12 73 194 125 120 77 97 77 12 412 215 11 161 90 111 43 17 17

Sequence


Ensembl Acc Id: ENSRNOT00000030832   ⟹   ENSRNOP00000038943
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1970,458,570 - 70,460,601 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000051397   ⟹   ENSRNOP00000039454
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1958,419,961 - 58,421,504 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000102684   ⟹   ENSRNOP00000078925
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1970,458,522 - 70,461,162 (+)Ensembl
mRatBN7.2 Ensembl1953,561,190 - 53,563,819 (+)Ensembl
RefSeq Acc Id: NM_001012504   ⟹   NP_001012522
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81970,458,604 - 70,460,122 (+)NCBI
mRatBN7.21953,561,262 - 53,562,780 (+)NCBI
Rnor_6.01958,420,635 - 58,422,153 (+)NCBI
Rnor_5.01969,119,722 - 69,121,240 (+)NCBI
RGSC_v3.41955,797,060 - 55,798,578 (+)RGD
Celera1952,922,285 - 52,923,803 (+)RGD
Sequence:
Protein Sequences
Protein RefSeqs NP_001012522 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAC60681 (Get FASTA)   NCBI Sequence Viewer  
  AAP92538 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000077721.1
  ENSRNOP00000078925
GenBank Protein Q63945 (Get FASTA)   NCBI Sequence Viewer  
RefSeq Acc Id: NP_001012522   ⟸   NM_001012504
- UniProtKB: A0A8I6G2K3 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000039454   ⟸   ENSRNOT00000051397
Ensembl Acc Id: ENSRNOP00000078925   ⟸   ENSRNOT00000102684
Ensembl Acc Id: ENSRNOP00000038943   ⟸   ENSRNOT00000030832

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q63945-F1-model_v2 AlphaFold Q63945 1-289 view protein structure

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:1307467 AgrOrtholog
BioCyc Gene G2FUF-5209 BioCyc
Ensembl Genes ENSRNOG00000025892 UniProtKB/Swiss-Prot
  ENSRNOG00000034241 Ensembl
  ENSRNOG00000062793 Ensembl, ENTREZGENE
Ensembl Transcript ENSRNOT00000102290.1 UniProtKB/Swiss-Prot
  ENSRNOT00000102684 ENTREZGENE
Gene3D-CATH 1.20.5.1500 UniProtKB/Swiss-Prot
  Nucleosome assembly protein UniProtKB/Swiss-Prot
IMAGE_CLONE IMAGE:9089104 IMAGE-MGC_LOAD
InterPro NAP-like_sf UniProtKB/Swiss-Prot
  NAP_family UniProtKB/Swiss-Prot
KEGG Report rno:307947 UniProtKB/Swiss-Prot
MGC_CLONE MGC:187306 IMAGE-MGC_LOAD
NCBI Gene 307947 ENTREZGENE
PANTHER PTHR11875 UniProtKB/Swiss-Prot
Pfam NAP UniProtKB/Swiss-Prot
PhenoGen Setsip PhenoGen
RatGTEx ENSRNOG00000025892 RatGTEx
  ENSRNOG00000034241 RatGTEx
  ENSRNOG00000062793 RatGTEx
Superfamily-SCOP SSF143113 UniProtKB/Swiss-Prot
UniProt A0A8I6G2K3 ENTREZGENE, UniProtKB/TrEMBL
  D4A466_RAT UniProtKB/TrEMBL
  Q63945 ENTREZGENE, UniProtKB/Swiss-Prot
UniProt Secondary Q7TPA3 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2022-03-17 Setsip  SET like protein  Set  SET nuclear proto-oncogene  Name and Symbol changed 629549 APPROVED
2014-07-10 Set  SET nuclear proto-oncogene  Set  SET nuclear oncogene  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-11-14 Set  SET nuclear oncogene  Set  SET translocation   Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-04-30 Set  SET translocation   Set_predicted  SET translocation (predicted)  'predicted' is removed 2292626 APPROVED
2005-01-12 Set_predicted  SET translocation (predicted)      Symbol and Name status set to approved 70820 APPROVED