Setl2 (SET-like protein 2) - Rat Genome Database

Send us a Message



Submit Data |  Help |  Video Tutorials |  News |  Publications |  Download |  REST API |  Citing RGD |  Contact   
Gene: Setl2 (SET-like protein 2) Rattus norvegicus
Analyze
No known orthologs.
Symbol: Setl2 (Ensembl: RGD1563307)
Name: SET-like protein 2 (Ensembl:similar to Set beta isoform)
RGD ID: 1563307
Description: Predicted to enable chromatin binding activity and histone binding activity. Predicted to be involved in nucleosome assembly. Predicted to be part of chromatin. Predicted to be active in nucleus; INTERACTS WITH bisphenol A; paracetamol; tetrachloromethane.
Type: pseudo (Ensembl: protein-coding)
RefSeq Status: INFERRED
Previously known as: LOC308503; RGD1563307; similar to Set; similar to Set beta isoform
RGD Orthologs
Alliance Genes
More Info homologs ...
Related Functional Gene: Set  
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8195,576,850 - 95,577,670 (-)NCBIGRCr8
mRatBN7.2186,449,482 - 86,450,302 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl186,449,044 - 86,453,811 (-)EnsemblmRatBN7.2 Ensembl
mRatBN7.2 EnsemblX119,908,942 - 119,909,886 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx191,869,845 - 91,870,665 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01100,336,014 - 100,336,834 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0193,628,142 - 93,628,962 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0189,645,570 - 89,646,774 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.0190,799,563 - 90,800,813 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4186,251,501 - 86,252,322 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera180,817,578 - 80,818,780 (-)NCBICelera
Cytogenetic Map1q21NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


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)
nucleus  (IBA)

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. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions

Genomics

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:96
Count of miRNA genes:73
Interacting mature miRNAs:74
Transcripts:ENSRNOT00000030832
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 (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
61342Bp27Blood pressure QTL 273.40.0006arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)15673266898773277Rat
61344Bp29Blood pressure QTL 297.5arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)178350581123350581Rat
61433Cia2Collagen induced arthritis QTL 25joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)17843075491209302Rat
70225Bp58Blood pressure QTL 583.3arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)132356093162846471Rat
631688Hcas2Hepatocarcinoma susceptibility QTL 230.0001liver integrity trait (VT:0010547)liver tumorous lesion number (CMO:0001068)15925874115540829Rat
738022Anxrr13Anxiety related response QTL 134.60.00039locomotor behavior trait (VT:0001392)number of 20 x 20 cm floor squares crossed into, out of or within a discrete space in an experimental apparatus (CMO:0001514)183547917128547917Rat
631495Bp96Blood pressure QTL 964.52arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)122340647102268831Rat
631512Scl6Serum cholesterol level QTL 69.6blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)17219768090508767Rat
634314Niddm44Non-insulin dependent diabetes mellitus QTL 44blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)149393289199050459Rat
1300121Hrtrt1Heart rate QTL 13.7heart pumping trait (VT:2000009)heart rate (CMO:0000002)165789093115540829Rat
1300172Bp172Blood pressure QTL 1723.56arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)13273727390665040Rat
1358359Sradr1Stress Responsive Adrenal Weight QTL 14.74adrenal gland mass (VT:0010420)both adrenal glands wet weight (CMO:0000164)130882023123479925Rat
1549903Bp267Blood pressure QTL 267arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)177876254106047988Rat
1358192Ept13Estrogen-induced pituitary tumorigenesis QTL 133.4pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)177494165122494165Rat
1582234Gluco18Glucose level QTL 183.40.0003blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)178479925123479925Rat
1578649Bmd8Bone mineral density QTL 84.9femur mineral mass (VT:0010011)trabecular volumetric bone mineral density (CMO:0001729)14939317294393172Rat
1578654Bss10Bone structure and strength QTL 104femur morphology trait (VT:0000559)femoral neck cortical cross-sectional area (CMO:0001702)149393172159356837Rat
1578780Cm52Cardiac mass QTL 523.30.0001heart mass (VT:0007028)heart wet weight (CMO:0000069)181591954219808434Rat
2298545Neuinf8Neuroinflammation QTL 84.6nervous system integrity trait (VT:0010566)spinal cord beta-2 microglobulin mRNA level (CMO:0002125)157336763151090257Rat
2302059Pia36Pristane induced arthritis QTL 363.80.001blood immunoglobulin amount (VT:0002460)serum immunoglobulin G1 level (CMO:0002115)14333300288333002Rat
2300164Bmd44Bone mineral density QTL 445.40.0001lumbar vertebra mineral mass (VT:0010511)volumetric bone mineral density (CMO:0001553)156949932101949932Rat
2300324Fetw1Fetal weight QTL 112.10.005fetal growth trait (VT:0004201)fetal body weight (CMO:0002080)185424647100358001Rat
2313051Bss57Bone structure and strength QTL 573.70.0001tibia strength trait (VT:1000284)bone polar moment of inertia (CMO:0001558)143284731118944897Rat
2313059Bss55Bone structure and strength QTL 553.20.0001tibia size trait (VT:0100001)tibia midshaft cross-sectional area (CMO:0001717)143284731118944897Rat
2313072Bss53Bone structure and strength QTL 534.30.0001tibia length (VT:0004357)tibia length (CMO:0000450)143284731118944897Rat
2313078Bss54Bone structure and strength QTL 543.50.0001tibia area (VT:1000281)tibia midshaft cross-sectional area (CMO:0001717)143284731118944897Rat
2313083Bmd74Bone mineral density QTL 7440.0001tibia mineral mass (VT:1000283)total volumetric bone mineral density (CMO:0001728)182174743118944897Rat
2313094Bss58Bone structure and strength QTL 583.70.0001tibia strength trait (VT:1000284)tibia total energy absorbed before break (CMO:0001736)143284731118944897Rat
2313098Bmd70Bone mineral density QTL 703.60.0001tibia mineral mass (VT:1000283)compact volumetric bone mineral density (CMO:0001730)143284731118944897Rat
2313099Bss56Bone structure and strength QTL 562.40.0001tibia size trait (VT:0100001)tibia midshaft endosteal cross-sectional area (CMO:0001716)143284731118944897Rat
2313402Anxrr24Anxiety related response QTL 24aggression-related behavior trait (VT:0015014)tameness/aggressiveness composite score (CMO:0002136)148963584144267916Rat
4889494Scort2Serum corticosterone level QTL 24.2blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)180592172125592172Rat
6903308Scl36Serum cholesterol QTL 3620.0125blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)15386304190532583Rat
7411712Strs4Sensitivity to stroke QTL 48.7cerebrum integrity trait (VT:0010549)percentage of study population developing cerebrovascular lesions during a period of time (CMO:0000932)178430536123430536Rat
7421628Bp361Blood pressure QTL 3610.001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)166023617118608521Rat
10054135Gmadr2Adrenal mass QTL 21.970.0129adrenal gland mass (VT:0010420)both adrenal glands wet weight (CMO:0000164)177857876122857876Rat
10059597Bp377Blood pressure QTL 3773.420.025arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)132737458199368955Rat


Expression


RNA-SEQ Expression
High: > 1000 TPM value   Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM   Below Cutoff: < 0.5 TPM

alimentary part of gastrointestinal system circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system appendage
High
Medium 7 4 4 4 29 2 18
Low 3 43 50 37 15 37 8 10 45 33 23 10 8
Below cutoff 1 1

Sequence


RefSeq Acc Id: ENSRNOT00000030832   ⟹   ENSRNOP00000038943
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 EnsemblX119,908,942 - 119,909,886 (-)Ensembl
Rnor_6.0 Ensembl189,645,769 - 89,646,590 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000102110   ⟹   ENSRNOP00000084915
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl186,449,044 - 86,453,811 (-)Ensembl
RefSeq Acc Id: XM_218493   ⟹   XP_218493
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2186,449,036 - 86,453,703 (-)NCBI
Rnor_6.0189,645,570 - 89,646,774 (-)NCBI
Rnor_5.0190,799,563 - 90,800,813 (-)NCBI
RGSC_v3.4186,251,501 - 86,252,322 (-)RGD
Sequence:
Protein Sequences
Ensembl Protein ENSRNOP00000038943.4
  ENSRNOP00000084915.1
RefSeq Acc Id: XP_218493   ⟸   XM_218493
- Sequence:
RefSeq Acc Id: ENSRNOP00000038943   ⟸   ENSRNOT00000030832
RefSeq Acc Id: ENSRNOP00000084915   ⟸   ENSRNOT00000102110

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D4A466-F1-model_v2 AlphaFold D4A466 1-273 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:1563307 AgrOrtholog
BioCyc Gene G2FUF-60037 BioCyc
Ensembl Genes ENSRNOG00000028984 Ensembl, UniProtKB/TrEMBL
  ENSRNOG00000069776 Ensembl, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000030832.4 UniProtKB/TrEMBL
  ENSRNOT00000102110.1 UniProtKB/TrEMBL
Gene3D-CATH 1.20.5.1500 UniProtKB/TrEMBL
  Nucleosome assembly protein UniProtKB/TrEMBL
InterPro NAP-like_sf UniProtKB/TrEMBL
  NAP_family UniProtKB/TrEMBL
KEGG Report rno:308503 UniProtKB/TrEMBL
NCBI Gene 308503 ENTREZGENE
PANTHER NAP_family UniProtKB/TrEMBL
  PROTEIN SET UniProtKB/TrEMBL
Pfam NAP UniProtKB/TrEMBL
PhenoGen Setl2 PhenoGen
RatGTEx ENSRNOG00000028984 RatGTEx
  ENSRNOG00000069776 RatGTEx
Superfamily-SCOP SSF143113 UniProtKB/TrEMBL
UniProt A0A8I6A0A9_RAT UniProtKB/TrEMBL
  D4A466_RAT UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2023-09-19 Setl2  SET-like protein 2  RGD1563307  similar to Set beta isoform  Symbol and Name Changed 1299863 APPROVED
2022-06-02 RGD1563307  similar to Set beta isoform  RGD1563307  similar to Set beta isoform  Data merged from RGD:149736322 737654 PROVISIONAL
2021-08-09 RGD1563307  similar to Set beta isoform      Symbol and Name status set to provisional 45752 PROVISIONAL
2008-04-30 RGD1563307  similar to Set beta isoform   RGD1563307_predicted  similar to Set beta isoform (predicted)  'predicted' is removed 2292626 APPROVED
2006-03-07 RGD1563307_predicted  similar to Set beta isoform (predicted)  LOC308503  similar to Set beta isoform  Symbol and Name status set to approved 1299863 APPROVED
2006-02-09 LOC308503  similar to Set beta isoform      Symbol and Name status set to provisional 70820 PROVISIONAL