Setmar (SET domain without mariner transposase fusion) - Rat Genome Database

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Gene: Setmar (SET domain without mariner transposase fusion) Mus musculus
Analyze
Symbol: Setmar
Name: SET domain without mariner transposase fusion
RGD ID: 1558346
MGI Page MGI
Description: Predicted to enable several functions, including DNA binding activity; DNA topoisomerase binding activity; and protein-lysine N-methyltransferase activity. Predicted to be involved in several processes, including DNA metabolic process; positive regulation of DNA topoisomerase (ATP-hydrolyzing) activity; and positive regulation of double-strand break repair via nonhomologous end joining. Predicted to be located in nucleolus and site of double-strand break. Predicted to colocalize with condensed chromosome. Is expressed in several structures, including alimentary system; genitourinary system; integumental system; nervous system; and respiratory system. Orthologous to human SETMAR (SET domain and mariner transposase fusion gene).
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: 5830404F24Rik; epidermal tumor expressed transcript 2; Etet2; histone-lysine N-methyltransferase SETMAR; SET domain and mariner transposase fusion gene-containing protein homolog
RGD Orthologs
Human
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCm39 - Mouse Genome Assembly GRCm39
Position:
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm396108,042,006 - 108,054,088 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl6108,042,006 - 108,054,083 (+)EnsemblGRCm39 Ensembl
GRCm386108,065,045 - 108,077,127 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl6108,065,045 - 108,077,122 (+)EnsemblGRCm38mm10GRCm38
MGSCv376108,015,040 - 108,027,114 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv366108,030,822 - 108,042,902 (+)NCBIMGSCv36mm8
Celera6109,874,089 - 109,886,144 (+)NCBICelera
Cytogenetic Map6E1NCBI
cM Map649.71NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Pathway Annotations     Click to see Annotation Detail View
Phenotype Annotations     Click to see Annotation Detail View

Mammalian Phenotype
References

References - curated
# Reference Title Reference Citation
1. Functional annotation of a full-length mouse cDNA collection. Kawai J, etal., Nature. 2001 Feb 8;409(6821):685-90.
2. Analysis of the mouse transcriptome based on functional annotation of 60,770 full-length cDNAs. Okazaki Y, etal., Nature. 2002 Dec 5;420(6915):563-73.
3. KEGG Annotation Import Pipeline Pipeline to import KEGG annotations from KEGG into RGD
4. Mouse MP Annotation Import Pipeline RGD automated import pipeline
5. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
6. Database resources of the National Center for Biotechnology Information. Wheeler DL, etal., Nucleic Acids Res 2001 Jan 1;29(1):11-6.
Additional References at PubMed
PMID:10349636   PMID:11042159   PMID:11076861   PMID:12477932   PMID:14681479   PMID:15489334   PMID:16141072   PMID:16141073   PMID:16672366   PMID:20620605   PMID:21541502   PMID:21677750  
PMID:21873635   PMID:23964856   PMID:30973865   PMID:38355793  


Genomics

Comparative Map Data
Setmar
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm396108,042,006 - 108,054,088 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl6108,042,006 - 108,054,083 (+)EnsemblGRCm39 Ensembl
GRCm386108,065,045 - 108,077,127 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl6108,065,045 - 108,077,122 (+)EnsemblGRCm38mm10GRCm38
MGSCv376108,015,040 - 108,027,114 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv366108,030,822 - 108,042,902 (+)NCBIMGSCv36mm8
Celera6109,874,089 - 109,886,144 (+)NCBICelera
Cytogenetic Map6E1NCBI
cM Map649.71NCBI
SETMAR
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh3834,303,369 - 4,317,265 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl34,303,332 - 4,317,265 (+)EnsemblGRCh38hg38GRCh38
GRCh3734,345,053 - 4,358,949 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 3634,320,016 - 4,333,949 (+)NCBINCBI36Build 36hg18NCBI36
Build 3434,320,070 - 4,333,948NCBI
Celera34,282,941 - 4,296,902 (+)NCBICelera
Cytogenetic Map3p26.1NCBI
HuRef34,278,470 - 4,292,431 (+)NCBIHuRef
CHM1_134,295,088 - 4,309,040 (+)NCBICHM1_1
T2T-CHM13v2.034,297,118 - 4,311,014 (+)NCBIT2T-CHM13v2.0
Setmar
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr84142,602,066 - 142,614,208 (+)NCBIGRCr8
mRatBN7.24141,046,058 - 141,058,183 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl4141,046,069 - 141,058,197 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx4146,462,703 - 146,474,799 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.04142,243,420 - 142,255,522 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.04140,887,379 - 140,899,484 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.04140,092,346 - 140,104,495 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl4140,092,352 - 140,105,316 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.04204,560,058 - 204,571,718 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.44143,564,021 - 143,576,022 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera4129,699,443 - 129,711,306 (+)NCBICelera
Cytogenetic Map4q41NCBI
LOC102020128
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0NW_0049554219,066,906 - 9,080,352 (-)NCBIChiLan1.0ChiLan1.0
LOC100986203
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v224,314,856 - 4,328,889 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan134,318,118 - 4,333,649 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v034,256,539 - 4,271,593 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.134,357,779 - 4,371,810 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl34,357,890 - 4,371,791 (+)Ensemblpanpan1.1panPan2
SETMAR
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12013,214,241 - 13,224,020 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2013,214,241 - 13,224,020 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2013,187,342 - 13,197,119 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.02013,252,140 - 13,261,903 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2013,249,713 - 13,261,957 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.12012,956,313 - 12,966,091 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02013,296,532 - 13,306,290 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02013,283,976 - 13,293,754 (-)NCBIUU_Cfam_GSD_1.0
LOC101962206
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494210,805,678 - 10,817,230 (+)NCBIHiC_Itri_2
SpeTri2.0NW_0049365773,761,078 - 3,771,864 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
LOC100514009
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.11360,914,412 - 60,933,064 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21367,224,808 - 67,234,390 (+)NCBISscrofa10.2Sscrofa10.2susScr3
SETMAR
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12240,389,390 - 40,403,917 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl2240,389,485 - 40,403,898 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_023666041126,264,839 - 126,279,998 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
LOC101704237
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462477314,680,571 - 14,692,583 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Setmar
628 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:563
Count of miRNA genes:338
Interacting mature miRNAs:390
Transcripts:ENSMUST00000049246, ENSMUST00000138140
Prediction methods:Microtar, Miranda, Rnahybrid, Targetscan
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 (GRCm39)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
10043864T2dm4sa_mtype 2 diabetes mellitus 4 in SMXA RI mice (mouse)Not determined683690851146954059Mouse
1300887Pabr1_mplasma apolipoprotein B (human) regulator 1 (mouse)Not determined6103754405136400690Mouse
1301915Chab3_mcholesterol absorption 3 (mouse)Not determined698908709132916997Mouse
10043923Bhr7_mbronchial hyperresponsiveness 7 (mouse)Not determined698219814132219938Mouse
4141940W6q5_mweight 6 weeks QTL 5 (mouse)Not determined96632912146535124Mouse
4142259Tabw2_mtally ho associated body weight 2 (mouse)Not determined46912919136400690Mouse
25314319Histh6_mhistamine hypersensitivity 6 (mouse)648696934125336963Mouse
12792979Fbmd2_mfemoral bone mineral density 2, females only (mouse)675026989115026943Mouse
25314320Histh5_mhistamine hypersensitivity 5 (mouse)648696934148351498Mouse
1301509Sluc3_msusceptibility to lung cancer 3 (mouse)Not determined6104480321127019938Mouse
1301962Eila2_methanol induced locomotor activity 2 (mouse)Not determined648703490125333748Mouse
1301262Gasa3_mgastritis type A susceptibility locus 3 (mouse)Not determined688982366122982564Mouse
1301518Bbaa5_mB.burgdorferi-associated arthritis 5 (mouse)Not determined698483798145881170Mouse
11353842Bmiq4_mbody mass index QTL 4 (mouse)692584287146330736Mouse
1302131Bmd8_mbone mineral density 8 (mouse)Not determined699132089133132228Mouse
10412157Fl1n_mfatty liver 1 in NSY (mouse)Not determined645290993128811995Mouse
11251720Ewc4_methanol withdrawal and consumption 4 (mouse)684099474118099474Mouse
1301744Hdlq11_mHDL QTL 11 (mouse)Not determined687480321121480516Mouse
25440480Moaq2_mmodifier of alien QTL 2 (mouse)63050001117476961Mouse
26884414Bzwq12_mbi-zygomatic width QTL 12, 16 week (mouse)63400000139076998Mouse
10043901Pfat5_mpredicted fat percentage 5 (mouse)Not determined675584287109584431Mouse
1301687Mnic2_mmacronutrient intake (mouse)Not determined686783787113521563Mouse
1357683Igf1sl1_mIGF-1 serum levels 1 (mouse)Not determined652138693116132228Mouse
1357875Pfat2_mpredicted fat percentage 2 (mouse)Not determined676440930110441074Mouse
1357555Tesq2_mtestis weight QTL 2 (mouse)Not determined696632912146535124Mouse
10412208Cypr4_mcytokine production 4 (mouse)Not determined675693484109693678Mouse
1301244Ichs_mimmediate cutaneous hypersensitivity QTL (mouse)Not determined690772571124772807Mouse
4142416Egq11_mearly growth QTL 11 (mouse)Not determined96632912146535124Mouse
1301923Lith6_mlithogenic gene 6 (mouse)Not determined698694477132694676Mouse
1300704Cia3_mcollagen induced arthritis QTL 3 (mouse)Not determined696324286130324483Mouse
4141578Obrq1_mobesity resistance QTL 1 (mouse)Not determined92584287111981699Mouse
1357793Pnhdlc1_mplasma non-HDL cholesterol 1 (mouse)Not determined6105541783114345810Mouse
1357806Aaj3_manxiety in A/J 3 (mouse)Not determined6104480321136400690Mouse
13506930Recrq9_mrecombination rate in male meiosis QTL 9 (mouse)673476983134676963Mouse
4141699Ibdq2_minflammatory bowel disease QTL 2 (mouse)Not determined105982366120894102Mouse
12910776Hcga4b_mhome cage activity 4b (mouse)6104480321110937026Mouse
4141376Dbm1_mdiabetes modifier 1 (mouse)Not determined678606487121092347Mouse
1301292Cfbw2_mcystic fibrosis body weight 2 (mouse)Not determined694981612128981699Mouse
11040599Lmr4b_mleishmaniasis resistance 4b (mouse)696324286130324483Mouse


Expression

RNA-SEQ Expression


Sequence


Ensembl Acc Id: ENSMUST00000049246   ⟹   ENSMUSP00000048225
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl6108,042,006 - 108,054,083 (+)Ensembl
GRCm38.p6 Ensembl6108,065,045 - 108,077,122 (+)Ensembl
Ensembl Acc Id: ENSMUST00000138140   ⟹   ENSMUSP00000145263
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl6108,042,023 - 108,054,083 (+)Ensembl
GRCm38.p6 Ensembl6108,065,062 - 108,077,122 (+)Ensembl
RefSeq Acc Id: NM_001276356   ⟹   NP_001263285
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm396108,042,006 - 108,054,088 (+)NCBI
GRCm386108,065,045 - 108,077,127 (+)NCBI
Celera6109,874,088 - 109,886,151 (+)NCBI
Sequence:
RefSeq Acc Id: NM_178391   ⟹   NP_848478
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm396108,042,006 - 108,054,088 (+)NCBI
GRCm386108,065,045 - 108,077,127 (+)NCBI
MGSCv376108,015,040 - 108,027,114 (+)RGD
Celera6109,874,088 - 109,886,151 (+)NCBI
cM Map6 ENTREZGENE
Sequence:
Protein Sequences
Protein RefSeqs NP_001263285 (Get FASTA)   NCBI Sequence Viewer  
  NP_848478 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAH45208 (Get FASTA)   NCBI Sequence Viewer  
  EDK99405 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSMUSP00000048225
  ENSMUSP00000048225.6
  ENSMUSP00000145263.2
GenBank Protein Q80UJ9 (Get FASTA)   NCBI Sequence Viewer  
RefSeq Acc Id: NP_848478   ⟸   NM_178391
- Peptide Label: isoform 1
- UniProtKB: E9QLD6 (UniProtKB/Swiss-Prot),   Q80UJ9 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: NP_001263285   ⟸   NM_001276356
- Peptide Label: isoform 2
- Sequence:
Ensembl Acc Id: ENSMUSP00000145263   ⟸   ENSMUST00000138140
Ensembl Acc Id: ENSMUSP00000048225   ⟸   ENSMUST00000049246
Protein Domains
Post-SET   Pre-SET   SET

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q80UJ9-F1-model_v2 AlphaFold Q80UJ9 1-309 view protein structure

Promoters
RGD ID:6839974
Promoter ID:MM_KWN:47095
Type:Non-CpG
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:3T3L1_Day0,   3T3L1_Day1,   3T3L1_Day2,   3T3L1_Day3,   3T3L1_Day4,   BoneMarrow_0Hour,   BoneMarrow_2Hour,   BoneMarrow_4Hour,   Brain,   ES_Cell,   Kidney,   Liver,   Lung,   MEF_B4,   MEF_B6
Transcripts:OTTMUST00000041969,   OTTMUST00000041970
Position:
Mouse AssemblyChrPosition (strand)Source
MGSCv366108,014,996 - 108,015,496 (+)MPROMDB
RGD ID:6890578
Promoter ID:EPDNEW_M8740
Type:multiple initiation site
Name:Setmar_1
Description:Mus musculus SET domain without mariner transposase fusion ,transcript variant 1, mRNA.
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm386108,065,045 - 108,065,105EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene MGI:1921979 AgrOrtholog
Ensembl Genes ENSMUSG00000034639 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Ensembl Transcript ENSMUST00000049246 ENTREZGENE
  ENSMUST00000049246.7 UniProtKB/Swiss-Prot
  ENSMUST00000138140.3 UniProtKB/TrEMBL
Gene3D-CATH 2.170.270.10 UniProtKB/Swiss-Prot
InterPro H3K9_Histone-Lys_N-MTase UniProtKB/Swiss-Prot
  Post-SET_dom UniProtKB/Swiss-Prot
  Pre-SET_dom UniProtKB/Swiss-Prot
  SET_dom UniProtKB/Swiss-Prot
  SET_dom_sf UniProtKB/Swiss-Prot
KEGG Report mmu:74729 UniProtKB/Swiss-Prot
MGD MGI:1921979 ENTREZGENE
NCBI Gene 74729 ENTREZGENE
PANTHER HISTONE-LYSINE N-METHYLTRANSFERASE SUV39H UniProtKB/Swiss-Prot
  HISTONE-LYSINE N-METHYLTRANSFERASE-RELATED UniProtKB/Swiss-Prot
Pfam Pre-SET UniProtKB/Swiss-Prot
  SET UniProtKB/Swiss-Prot
PhenoGen Setmar PhenoGen
PROSITE POST_SET UniProtKB/Swiss-Prot
  PRE_SET UniProtKB/Swiss-Prot
  SET UniProtKB/Swiss-Prot
SMART PreSET UniProtKB/Swiss-Prot
  SET UniProtKB/Swiss-Prot
Superfamily-SCOP SSF82199 UniProtKB/Swiss-Prot
UniProt A0A0N4SVW0_MOUSE UniProtKB/TrEMBL
  E9QLD6 ENTREZGENE
  Q80UJ9 ENTREZGENE, UniProtKB/Swiss-Prot
UniProt Secondary E9QLD6 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2013-02-12 Setmar  SET domain without mariner transposase fusion    SET domain and mariner transposase fusion gene  Symbol and/or name change 5135510 APPROVED