Setd2 (SET domain containing 2, histone lysine methyltransferase) - Rat Genome Database

Send us a Message



Submit Data |  Help |  Video Tutorials |  News |  Publications |  Download |  REST API |  Citing RGD |  Contact   
Gene: Setd2 (SET domain containing 2, histone lysine methyltransferase) Rattus norvegicus
Analyze
Symbol: Setd2
Name: SET domain containing 2, histone lysine methyltransferase
RGD ID: 1305576
Description: Predicted to enable alpha-tubulin binding activity and histone methyltransferase activity (H3-K36 specific). Predicted to be involved in several processes, including defense response to other organism; nucleic acid metabolic process; and peptidyl-lysine methylation. Predicted to act upstream of or within several processes, including chordate embryonic development; histone H3-K36 trimethylation; and tube morphogenesis. Predicted to be located in chromosome and nucleus. Human ortholog(s) of this gene implicated in carcinoma (multiple); gastrointestinal system cancer (multiple); idiopathic pulmonary fibrosis; and malignant mesothelioma. Orthologous to human SETD2 (SET domain containing 2, histone lysine methyltransferase); PARTICIPATES IN histone modification pathway; renal cell carcinoma pathway; lysine degradation pathway; INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; bisphenol A; DDT.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: histone-lysine N-methyltransferase SETD2; Kif9; kinesin family member 9; LOC316013; SET domain containing 2
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.28110,511,808 - 110,597,489 (+)NCBImRatBN7.2
mRatBN7.2 Ensembl8110,511,772 - 110,597,489 (+)Ensembl
Rnor_6.08118,802,478 - 118,888,224 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl8118,803,075 - 118,888,224 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.08118,163,197 - 118,229,411 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.48114,913,851 - 114,999,955 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.18114,953,667 - 115,019,393 (+)NCBI
Celera8109,796,476 - 109,881,676 (+)NCBICelera
Cytogenetic Map8q32NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component
cellular_component  (ND)
chromosome  (IBA,ISO)
nucleus  (IBA,ISO)

Molecular Pathway Annotations     Click to see Annotation Detail View
References

References - curated
1. Audenet F, etal., BJU Int. 2012 Jun;109(12):1864-70. doi: 10.1111/j.1464-410X.2011.10661.x. Epub 2011 Oct 28.
2. Bi M, etal., Proc Natl Acad Sci U S A. 2016 Feb 23;113(8):2170-5. doi: 10.1073/pnas.1525735113. Epub 2016 Feb 10.
3. Black JC, etal., Mol Cell. 2012 Nov 30;48(4):491-507. doi: 10.1016/j.molcel.2012.11.006.
4. Bueno R, etal., Nat Genet. 2016 Apr;48(4):407-16. doi: 10.1038/ng.3520. Epub 2016 Feb 29.
5. Chen Z, etal., Biochem Biophys Res Commun. 2018 Apr 6;498(3):579-585. doi: 10.1016/j.bbrc.2018.03.022. Epub 2018 Mar 9.
6. Choi YJ, etal., Hum Pathol. 2014 Aug;45(8):1674-81. doi: 10.1016/j.humpath.2014.04.013. Epub 2014 Apr 24.
7. Foggetti G, etal., Cancer Discov. 2021 Jul;11(7):1736-1753. doi: 10.1158/2159-8290.CD-20-1385. Epub 2021 Mar 11.
8. Ganaie IA, etal., Protoplasma. 2017 May;254(3):1451-1466. doi: 10.1007/s00709-016-1035-2. Epub 2016 Oct 20.
9. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
10. Hata A, etal., Int J Cancer. 2021 Jun 15;148(12):3008-3018. doi: 10.1002/ijc.33499. Epub 2021 Feb 19.
11. Huang KK, etal., Gut. 2016 Dec;65(12):1960-1972. doi: 10.1136/gutjnl-2015-309482. Epub 2015 Sep 3.
12. Jia X, etal., J Cell Mol Med. 2019 Apr;23(4):2667-2677. doi: 10.1111/jcmm.14166. Epub 2019 Feb 12.
13. Kadara H, etal., Ann Oncol. 2017 Jan 1;28(1):75-82. doi: 10.1093/annonc/mdw436.
14. Li H, etal., Oncotarget. 2015 Sep 29;6(29):27847-64. doi: 10.18632/oncotarget.4443.
15. MGD data from the GO Consortium
16. Mudduluru G, etal., Cancer Res. 2015 Aug 1;75(15):3010-9. doi: 10.1158/0008-5472.CAN-15-0997. Epub 2015 Jun 11.
17. Pipeline to import KEGG annotations from KEGG into RGD
18. RGD automated data pipeline
19. RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
20. RGD automated import pipeline for gene-chemical interactions
21. RGD comprehensive gene curation
22. Roberti A, etal., Nat Commun. 2016 Sep 7;7:12602. doi: 10.1038/ncomms12602.
23. Togo Y, etal., Int J Oncol. 2016 Apr;48(4):1571-80. doi: 10.3892/ijo.2016.3395. Epub 2016 Feb 17.
24. Walter DM, etal., Cancer Res. 2017 Apr 1;77(7):1719-1729. doi: 10.1158/0008-5472.CAN-16-2159. Epub 2017 Feb 15.
25. Wilson BG and Roberts CW, Nat Rev Cancer. 2011 Jun 9;11(7):481-92. doi: 10.1038/nrc3068.
26. Wu YS, etal., PLoS One. 2016 Nov 15;11(11):e0166378. doi: 10.1371/journal.pone.0166378. eCollection 2016.
27. Yoshikawa Y, etal., Proc Natl Acad Sci U S A. 2016 Nov 22;113(47):13432-13437. doi: 10.1073/pnas.1612074113. Epub 2016 Nov 9.
28. Yu M, etal., Zhonghua Lao Dong Wei Sheng Zhi Ye Bing Za Zhi. 2021 Feb 20;39(2):91-98. doi: 10.3760/cma.j.cn121094-20200831-00505.
29. Yuan H, etal., J Clin Invest. 2017 Sep 1;127(9):3375-3391. doi: 10.1172/JCI94292. Epub 2017 Aug 21.
30. Zhou Y, etal., Aging (Albany NY). 2020 Nov 20;12(24):25189-25206. doi: 10.18632/aging.104120. Epub 2020 Nov 20.
Additional References at PubMed
PMID:11092755   PMID:18157086   PMID:19141475   PMID:20133625   PMID:23043551   PMID:23325844   PMID:23622243   PMID:24036311   PMID:24843002   PMID:25242323   PMID:26002201   PMID:27474439  
PMID:27518565   PMID:28753426  


Genomics

Comparative Map Data
Setd2
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.28110,511,808 - 110,597,489 (+)NCBImRatBN7.2
mRatBN7.2 Ensembl8110,511,772 - 110,597,489 (+)Ensembl
Rnor_6.08118,802,478 - 118,888,224 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl8118,803,075 - 118,888,224 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.08118,163,197 - 118,229,411 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.48114,913,851 - 114,999,955 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.18114,953,667 - 115,019,393 (+)NCBI
Celera8109,796,476 - 109,881,676 (+)NCBICelera
Cytogenetic Map8q32NCBI
SETD2
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38347,016,436 - 47,164,840 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p13 Ensembl347,016,428 - 47,164,113 (-)EnsemblGRCh38hg38GRCh38
GRCh37347,057,926 - 47,205,603 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36347,032,910 - 47,140,744 (-)NCBINCBI36hg18NCBI36
Celera346,996,415 - 47,143,855 (-)NCBI
Cytogenetic Map3p21.31NCBI
HuRef347,101,003 - 47,248,517 (-)NCBIHuRef
CHM1_1347,008,283 - 47,155,743 (-)NCBICHM1_1
Setd2
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm399110,361,368 - 110,447,701 (+)NCBIGRCm39mm39
GRCm39 Ensembl9110,361,665 - 110,447,701 (+)Ensembl
GRCm389110,532,500 - 110,618,633 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl9110,532,597 - 110,618,633 (+)EnsemblGRCm38mm10GRCm38
MGSCv379110,435,101 - 110,521,137 (+)NCBIGRCm37mm9NCBIm37
MGSCv369110,393,444 - 110,463,449 (+)NCBImm8
Celera9110,275,024 - 110,348,565 (+)NCBICelera
Cytogenetic Map9F2NCBI
Setd2
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495542025,090,798 - 25,177,760 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495542025,070,626 - 25,178,410 (+)NCBIChiLan1.0ChiLan1.0
SETD2
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.1348,017,856 - 48,164,007 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl348,018,517 - 48,163,999 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v0346,916,615 - 47,064,046 (-)NCBIMhudiblu_PPA_v0panPan3
SETD2
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12041,675,539 - 41,800,697 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2041,675,599 - 41,800,612 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2041,591,796 - 41,716,953 (+)NCBI
ROS_Cfam_1.02042,158,289 - 42,283,519 (+)NCBI
ROS_Cfam_1.0 Ensembl2042,158,169 - 42,283,502 (+)Ensembl
UMICH_Zoey_3.12041,400,062 - 41,525,212 (+)NCBI
UNSW_CanFamBas_1.02041,801,303 - 41,926,169 (+)NCBI
UU_Cfam_GSD_1.02042,081,936 - 42,207,122 (+)NCBI
Setd2
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024405118201,246,801 - 201,349,701 (-)NCBI
SpeTri2.0NW_004936596795,940 - 898,823 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
SETD2
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1329,884,712 - 29,996,360 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11329,884,708 - 29,996,285 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21333,143,413 - 33,229,793 (-)NCBISscrofa10.2Sscrofa10.2susScr3
SETD2
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1228,421,178 - 8,567,221 (-)NCBIChlSab1.1chlSab2
ChlSab1.1 Ensembl228,420,960 - 8,567,201 (-)EnsemblChlSab1.1chlSab2
Vero_WHO_p1.0NW_023666041158,577,714 - 158,728,031 (+)NCBIVero_WHO_p1.0
Setd2
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462473074,187,981 - 74,277,857 (+)NCBIHetGla_female_1.0hetGla2

Position Markers
D8Rat90  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.28110,572,032 - 110,572,221 (+)MAPPERmRatBN7.2
Rnor_6.08118,862,625 - 118,862,813NCBIRnor6.0
Rnor_5.08118,203,812 - 118,204,000UniSTSRnor5.0
RGSC_v3.48114,974,499 - 114,974,688RGDRGSC3.4
RGSC_v3.48114,974,500 - 114,974,688UniSTSRGSC3.4
RGSC_v3.18114,993,954 - 114,994,143RGD
Celera8109,856,234 - 109,856,422UniSTS
SHRSP x BN Map871.8999RGD
SHRSP x BN Map871.8999UniSTS
Cytogenetic Map8q32UniSTS
RH132638  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.28110,597,144 - 110,597,350 (+)MAPPERmRatBN7.2
Rnor_6.08118,887,880 - 118,888,085NCBIRnor6.0
Rnor_5.08118,229,067 - 118,229,272UniSTSRnor5.0
RGSC_v3.48114,999,611 - 114,999,816UniSTSRGSC3.4
Celera8109,881,332 - 109,881,537UniSTS
Cytogenetic Map8q32UniSTS
BE118240  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.28110,525,134 - 110,525,304 (+)MAPPERmRatBN7.2
Rnor_6.08118,815,672 - 118,815,841NCBIRnor6.0
Rnor_5.08118,157,140 - 118,157,309UniSTSRnor5.0
RGSC_v3.48114,926,941 - 114,927,110UniSTSRGSC3.4
Celera8109,809,657 - 109,809,826UniSTS
Cytogenetic Map8q32UniSTS
UniSTS:236262  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.28110,553,979 - 110,554,307 (+)MAPPERmRatBN7.2
Rnor_6.08118,844,516 - 118,844,843NCBIRnor6.0
Rnor_5.08118,185,984 - 118,186,311UniSTSRnor5.0
RGSC_v3.48114,956,459 - 114,956,786UniSTSRGSC3.4
Celera8109,838,506 - 109,838,833UniSTS
Cytogenetic Map8q32UniSTS


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
61437Cia6Collagen induced arthritis QTL 6joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)882460758122812818Rat
70197BpQTLcluster8Blood pressure QTL cluster 83.482arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)846531639119088624Rat
70197BpQTLcluster8Blood pressure QTL cluster 83.482arterial blood pressure trait (VT:2000000)pulse pressure (CMO:0000292)846531639119088624Rat
70197BpQTLcluster8Blood pressure QTL cluster 83.482arterial blood pressure trait (VT:2000000)absolute change in systolic blood pressure (CMO:0000607)846531639119088624Rat
70197BpQTLcluster8Blood pressure QTL cluster 83.482arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)846531639119088624Rat
631210Bw3Body weight QTL35.9mesenteric fat pad mass (VT:0010427)mesenteric fat pad weight to body weight ratio (CMO:0000654)869349194112783834Rat
2303171Bp331Blood pressure QTL 3315.570.005arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)861290298119084929Rat
724539Cm19Cardiac mass QTL 192.6heart mass (VT:0007028)calculated heart weight (CMO:0000073)8100149864120994388Rat
631650Stl6Serum triglyceride level QTL 640.0019blood triglyceride amount (VT:0002644)plasma triglyceride level (CMO:0000548)810378157112202585Rat
631653Bp125Blood pressure QTL 1253.3arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)866142385111142385Rat
738011Anxrr9Anxiety related response QTL 96.1exploratory behavior trait (VT:0010471)number of entries into a discrete space in an experimental apparatus (CMO:0000960)893535351123900184Rat
738014Anxrr15Anxiety related response QTL 153.60.005locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)895718998123900184Rat
1300171Bp184Blood pressure QTL 1843.66arterial blood pressure trait (VT:2000000)blood pressure time series experimental set point of the baroreceptor response (CMO:0002593)870513503118219066Rat
1581557Eae16Experimental allergic encephalomyelitis QTL 163.8nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis incidence/prevalence measurement (CMO:0001046)88462195110921472Rat
2300181Bmd55Bone mineral density QTL 555.70.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)876468691121468691Rat
2300182Bmd56Bone mineral density QTL 565.4femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)895718998123900184Rat
2313400Anxrr25Anxiety related response QTL 25aggression-related behavior trait (VT:0015014)tameness/aggressiveness composite score (CMO:0002136)889265192114019816Rat
1549909Stresp11Stress response QTL 116.830.0019stress-related behavior trait (VT:0010451)number of approaches toward negative stimulus before onset of defensive burying response (CMO:0001960)873473045118473045Rat
1554321Bmd3Bone mineral density QTL 37.90.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)840952565123900184Rat
1358893Bp263Blood pressure QTL 2635.01arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)893965141123900184Rat
1358903Bp252Blood pressure QTL 25270.0001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)893965141123900184Rat
8694446Bw170Body weight QTL 17012.070.001retroperitoneal fat pad mass (VT:0010430)retroperitoneal fat pad weight to body weight ratio (CMO:0000635)871888757116888757Rat
9590292Uminl3Urine mineral level QTL 33.620.001urine mineral amount (VT:0015086)urine electrolyte level (CMO:0000593)871888757116888757Rat
8694200Abfw4Abdominal fat weight QTL 49.070.001visceral adipose mass (VT:0010063)abdominal fat pad weight to body weight ratio (CMO:0000095)871888757116888757Rat
8694392Bw161Body weight QTL 1618.060.001body lean mass (VT:0010483)lean tissue morphological measurement (CMO:0002184)871888757116888757Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:97
Count of miRNA genes:75
Interacting mature miRNAs:90
Transcripts:ENSRNOT00000028409
Prediction methods: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.


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 3 41 52 36 19 36 8 10 74 35 40 11 8
Low 2 5 5 5 1 1
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000028409   ⟹   ENSRNOP00000028408
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl8110,511,953 - 110,597,489 (+)Ensembl
Rnor_6.0 Ensembl8118,821,729 - 118,888,224 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000087154   ⟹   ENSRNOP00000075606
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl8110,512,611 - 110,597,489 (+)Ensembl
Rnor_6.0 Ensembl8118,803,075 - 118,887,771 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000108520   ⟹   ENSRNOP00000088684
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl8110,526,138 - 110,597,489 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000111663   ⟹   ENSRNOP00000086264
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl8110,530,861 - 110,597,489 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000113014   ⟹   ENSRNOP00000097369
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl8110,511,772 - 110,597,485 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000114303   ⟹   ENSRNOP00000078840
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl8110,526,176 - 110,597,489 (+)Ensembl
RefSeq Acc Id: NM_001108189   ⟹   NP_001101659
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.28110,511,953 - 110,597,489 (+)NCBI
Rnor_6.08118,802,478 - 118,888,224 (+)NCBI
Rnor_5.08118,163,197 - 118,229,411 (+)NCBI
RGSC_v3.48114,913,851 - 114,999,955 (+)RGD
Celera8109,796,476 - 109,881,676 (+)RGD
Sequence:
RefSeq Acc Id: XM_039081608   ⟹   XP_038937536
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.28110,511,808 - 110,597,475 (+)NCBI
RefSeq Acc Id: XM_039081609   ⟹   XP_038937537
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.28110,511,808 - 110,597,475 (+)NCBI
RefSeq Acc Id: XM_039081610   ⟹   XP_038937538
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.28110,512,625 - 110,597,475 (+)NCBI
RefSeq Acc Id: XM_039081611   ⟹   XP_038937539
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.28110,511,808 - 110,597,475 (+)NCBI
RefSeq Acc Id: XR_005487850
RefSeq Status:
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.28110,511,808 - 110,597,475 (+)NCBI
RefSeq Acc Id: XR_005487851
RefSeq Status:
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.28110,511,808 - 110,597,475 (+)NCBI
RefSeq Acc Id: XR_005487852
RefSeq Status:
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.28110,511,808 - 110,571,851 (+)NCBI
RefSeq Acc Id: XR_005487853
RefSeq Status:
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.28110,511,808 - 110,571,762 (+)NCBI
Reference Sequences
RefSeq Acc Id: NP_001101659   ⟸   NM_001108189
- Sequence:
RefSeq Acc Id: ENSRNOP00000028408   ⟸   ENSRNOT00000028409
RefSeq Acc Id: ENSRNOP00000075606   ⟸   ENSRNOT00000087154
RefSeq Acc Id: XP_038937536   ⟸   XM_039081608
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038937539   ⟸   XM_039081611
- Peptide Label: isoform X4
RefSeq Acc Id: XP_038937537   ⟸   XM_039081609
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038937538   ⟸   XM_039081610
- Peptide Label: isoform X3
RefSeq Acc Id: ENSRNOP00000088684   ⟸   ENSRNOT00000108520
RefSeq Acc Id: ENSRNOP00000086264   ⟸   ENSRNOT00000111663
RefSeq Acc Id: ENSRNOP00000097369   ⟸   ENSRNOT00000113014
RefSeq Acc Id: ENSRNOP00000078840   ⟸   ENSRNOT00000114303
Protein Domains
AWS   Post-SET   SET   WW

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-A0A0G2KB10-F1-model_v2 AlphaFold A0A0G2KB10 1-2523 view protein structure

Transcriptome

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


Strain Variation

Strain Sequence Variants (MRatBN7.2)
ACI/EurMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
ACI/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN-Lx/CubMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/NHsdMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/NHsdMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/SsN (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BUF/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BXH2/CubMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BXH3/CubMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
DA/OlaHsd (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/DuCrl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/NCrl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/Stm (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FHH/EurMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FXLE16/Stm (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FXLE18/Stm (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
GK/FarMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB10/IpcvMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB2/IpcvMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB20/IpcvMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB31/IpcvMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB4/IpcvMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LE/Stm (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEW/Crl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF10A/StmMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF11/Stm (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF1A/Stm (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF1C/Stm (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF2B/Stm (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF3/Stm (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF4/Stm (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LH/MavRrrcAek (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LL/MavRrrcAek (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LN/MavRrrcAek (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
M520/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
M520/NRrrcMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
MR/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
MWF/Hsd (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
PVG/Seac (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SHR/OlalpcvMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SHRSP/A3NCrl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SR/JrHsd (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SS/JrHsdMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WAG/RijCrl (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/NCrl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WN/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1305576 AgrOrtholog
BioCyc Gene G2FUF-29067 BioCyc
Ensembl Genes ENSRNOG00000020915 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000028408 UniProtKB/TrEMBL
  ENSRNOP00000075606 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOP00000097369 ENTREZGENE
Ensembl Transcript ENSRNOT00000028409 UniProtKB/TrEMBL
  ENSRNOT00000087154 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOT00000113014 ENTREZGENE
Gene3D-CATH 1.10.1740.100 UniProtKB/TrEMBL
  1.20.930.10 UniProtKB/TrEMBL
InterPro AWS UniProtKB/TrEMBL
  Post-SET_dom UniProtKB/TrEMBL
  SET_dom UniProtKB/TrEMBL
  SETD2 UniProtKB/TrEMBL
  SETD2/Set2_SET UniProtKB/TrEMBL
  SRI UniProtKB/TrEMBL
  SRI_sf UniProtKB/TrEMBL
  TFIIS/LEDGF_dom_sf UniProtKB/TrEMBL
  WW_dom_sf UniProtKB/TrEMBL
  WW_Rsp5_WWP UniProtKB/TrEMBL
KEGG Report rno:316013 UniProtKB/TrEMBL
NCBI Gene 316013 ENTREZGENE
PANTHER PTHR46711 UniProtKB/TrEMBL
Pfam AWS UniProtKB/TrEMBL
  PF00397 UniProtKB/TrEMBL
  SET UniProtKB/TrEMBL
  SRI UniProtKB/TrEMBL
PhenoGen Setd2 PhenoGen
PROSITE AWS UniProtKB/TrEMBL
  POST_SET UniProtKB/TrEMBL
  SET UniProtKB/TrEMBL
  WW_DOMAIN_1 UniProtKB/TrEMBL
  WW_DOMAIN_2 UniProtKB/TrEMBL
SMART AWS UniProtKB/TrEMBL
  PostSET UniProtKB/TrEMBL
  SET UniProtKB/TrEMBL
  SM00456 UniProtKB/TrEMBL
Superfamily-SCOP WW_Rsp5_WWP UniProtKB/TrEMBL
UniProt A0A0G2KB10_RAT UniProtKB/TrEMBL
  D4A5H6_RAT UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2019-01-04 Setd2  SET domain containing 2, histone lysine methyltransferase  Setd2  SET domain containing 2  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-03-04 Setd2  SET domain containing 2  Kif9_predicted  kinesin family member 9 (predicted)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2005-01-12 Kif9_predicted  kinesin family member 9 (predicted)      Symbol and Name status set to approved 70820 APPROVED