SETD2 (SET domain containing 2, histone lysine methyltransferase) - Rat Genome Database

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Gene: SETD2 (SET domain containing 2, histone lysine methyltransferase) Sus scrofa
Analyze
Symbol: SETD2
Name: SET domain containing 2, histone lysine methyltransferase
RGD ID: 14111160
Description: ENCODES a protein that exhibits alpha-tubulin binding (inferred); histone H3K36 methyltransferase activity (inferred); histone H3K36 trimethyltransferase activity (inferred); INVOLVED IN angiogenesis (ortholog); cell migration involved in vasculogenesis (ortholog); coronary vasculature morphogenesis (ortholog); PARTICIPATES IN histone modification pathway; renal cell carcinoma pathway; ASSOCIATED WITH adenoid cystic carcinoma (ortholog); Agenesis of Corpus Callosum (ortholog); autism spectrum disorder (ortholog); FOUND IN chromosome (inferred); nucleus (inferred)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: histone-lysine N-methyltransferase SETD2; SET domain containing 2
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Dog
Squirrel
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: Sscrofa11.1 - Pig Sscrofa11.1 Assembly
Position:
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1329,884,719 - 29,996,359 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11329,884,708 - 29,996,285 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21333,143,413 - 33,229,793 (-)NCBISscrofa10.2Sscrofa10.2susScr3
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component
chromosome  (IBA,IEA)
nucleus  (IBA,IEA)

Molecular Pathway Annotations     Click to see Annotation Detail View
References
Additional References at PubMed
PMID:22301074   PMID:29447173   PMID:30032202  


Genomics

Comparative Map Data
SETD2
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1329,884,719 - 29,996,359 (-)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
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38347,016,436 - 47,164,840 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl347,016,428 - 47,164,113 (-)EnsemblGRCh38hg38GRCh38
GRCh37347,057,926 - 47,205,603 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36347,032,910 - 47,140,744 (-)NCBINCBI36Build 36hg18NCBI36
Celera346,996,415 - 47,143,855 (-)NCBICelera
Cytogenetic Map3p21.31NCBI
HuRef347,101,003 - 47,248,517 (-)NCBIHuRef
CHM1_1347,008,283 - 47,155,743 (-)NCBICHM1_1
T2T-CHM13v2.0347,032,799 - 47,180,480 (-)NCBIT2T-CHM13v2.0
Setd2
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm399110,361,368 - 110,447,703 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl9110,361,665 - 110,447,701 (+)EnsemblGRCm39 Ensembl
GRCm389110,532,500 - 110,618,633 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl9110,532,597 - 110,618,633 (+)EnsemblGRCm38mm10GRCm38
MGSCv379110,435,101 - 110,521,137 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv369110,393,444 - 110,463,449 (+)NCBIMGSCv36mm8
Celera9110,275,024 - 110,348,565 (+)NCBICelera
Cytogenetic Map9F2NCBI
cM Map960.0NCBI
Setd2
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr88119,390,207 - 119,475,863 (+)NCBIGRCr8
mRatBN7.28110,511,808 - 110,597,475 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl8110,511,772 - 110,597,489 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx8116,126,641 - 116,212,223 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.08114,325,835 - 114,411,418 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.08112,168,632 - 112,254,213 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
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 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.18114,953,667 - 115,019,393 (+)NCBI
Celera8109,796,476 - 109,881,676 (+)NCBICelera
Cytogenetic Map8q32NCBI
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
NHGRI_mPanPan1-v2246,972,766 - 47,120,166 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1346,977,530 - 47,124,822 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0346,916,615 - 47,064,046 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1348,017,856 - 48,164,007 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl348,018,517 - 48,163,999 (-)Ensemblpanpan1.1panPan2
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 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.02042,158,289 - 42,283,519 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2042,158,169 - 42,283,502 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.12041,400,062 - 41,525,212 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02041,801,303 - 41,926,169 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02042,081,936 - 42,207,122 (+)NCBIUU_Cfam_GSD_1.0
Setd2
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024405118201,246,801 - 201,349,701 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_004936596796,601 - 883,373 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_004936596795,940 - 898,823 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
SETD2
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1228,421,178 - 8,567,221 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl228,420,960 - 8,567,201 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_023666041158,577,714 - 158,728,031 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Setd2
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462473074,187,995 - 74,277,200 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462473074,187,981 - 74,277,857 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in SETD2
1811 total Variants

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 hemolymphoid system musculoskeletal system nervous system renal system reproductive system respiratory system
High
Medium 10 4 3 5 2 23 2 3 3
Low
Below cutoff

Sequence


RefSeq Acc Id: ENSSSCT00000051013   ⟹   ENSSSCP00000052304
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl1329,884,719 - 29,996,359 (-)Ensembl
RefSeq Acc Id: ENSSSCT00000101679   ⟹   ENSSSCP00000076797
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl1329,922,137 - 29,996,249 (-)Ensembl
RefSeq Acc Id: XM_021068704   ⟹   XP_020924363
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.11329,884,708 - 29,996,285 (-)NCBI
Sequence:
RefSeq Acc Id: XP_020924363   ⟸   XM_021068704
- UniProtKB: A0A4X1T5Q3 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSSSCP00000052304   ⟸   ENSSSCT00000051013
RefSeq Acc Id: ENSSSCP00000076797   ⟸   ENSSSCT00000101679
Protein Domains
AWS   Post-SET   SET   WW


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSSSCG00000011332 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
  ENSSSCG00005044882 UniProtKB/TrEMBL
  ENSSSCG00015015048 UniProtKB/TrEMBL
  ENSSSCG00025039606 UniProtKB/TrEMBL
  ENSSSCG00030030810 UniProtKB/TrEMBL
  ENSSSCG00035056085 UniProtKB/TrEMBL
  ENSSSCG00040029209 UniProtKB/TrEMBL
  ENSSSCG00045017913 UniProtKB/TrEMBL
  ENSSSCG00055010479 UniProtKB/TrEMBL
  ENSSSCG00060013715 UniProtKB/TrEMBL
  ENSSSCG00065039649 UniProtKB/TrEMBL
  ENSSSCG00070006425 UniProtKB/TrEMBL
Ensembl Transcript ENSSSCT00000051013 ENTREZGENE
  ENSSSCT00000051013.3 UniProtKB/TrEMBL
  ENSSSCT00000101679.1 UniProtKB/TrEMBL
  ENSSSCT00005072459.1 UniProtKB/TrEMBL
  ENSSSCT00005072468.1 UniProtKB/TrEMBL
  ENSSSCT00005072492.1 UniProtKB/TrEMBL
  ENSSSCT00005072517.1 UniProtKB/TrEMBL
  ENSSSCT00015020632.1 UniProtKB/TrEMBL
  ENSSSCT00025053784.1 UniProtKB/TrEMBL
  ENSSSCT00025053949.1 UniProtKB/TrEMBL
  ENSSSCT00025054155.1 UniProtKB/TrEMBL
  ENSSSCT00025054367.1 UniProtKB/TrEMBL
  ENSSSCT00030042785.1 UniProtKB/TrEMBL
  ENSSSCT00030042816.1 UniProtKB/TrEMBL
  ENSSSCT00030042891.1 UniProtKB/TrEMBL
  ENSSSCT00035074857.1 UniProtKB/TrEMBL
  ENSSSCT00035074863.1 UniProtKB/TrEMBL
  ENSSSCT00035074894.1 UniProtKB/TrEMBL
  ENSSSCT00035074917.1 UniProtKB/TrEMBL
  ENSSSCT00040039258.1 UniProtKB/TrEMBL
  ENSSSCT00040039283.1 UniProtKB/TrEMBL
  ENSSSCT00040039390.1 UniProtKB/TrEMBL
  ENSSSCT00040039506.1 UniProtKB/TrEMBL
  ENSSSCT00045030512.1 UniProtKB/TrEMBL
  ENSSSCT00045030663.1 UniProtKB/TrEMBL
  ENSSSCT00045030803.1 UniProtKB/TrEMBL
  ENSSSCT00045030975.1 UniProtKB/TrEMBL
  ENSSSCT00055020484.1 UniProtKB/TrEMBL
  ENSSSCT00055020523.1 UniProtKB/TrEMBL
  ENSSSCT00055020560.1 UniProtKB/TrEMBL
  ENSSSCT00060018072.1 UniProtKB/TrEMBL
  ENSSSCT00060018080.1 UniProtKB/TrEMBL
  ENSSSCT00060018097.1 UniProtKB/TrEMBL
  ENSSSCT00060018112.1 UniProtKB/TrEMBL
  ENSSSCT00065054175.1 UniProtKB/TrEMBL
  ENSSSCT00065054180.1 UniProtKB/TrEMBL
  ENSSSCT00065054184.1 UniProtKB/TrEMBL
  ENSSSCT00070012276.1 UniProtKB/TrEMBL
  ENSSSCT00070012292.1 UniProtKB/TrEMBL
Gene3D-CATH 1.10.1740.100 UniProtKB/TrEMBL
  1.20.930.10 UniProtKB/TrEMBL
  2.170.270.10 UniProtKB/TrEMBL
  2.20.70.10 UniProtKB/TrEMBL
InterPro AWS_dom UniProtKB/TrEMBL
  Post-SET_dom UniProtKB/TrEMBL
  SET_dom UniProtKB/TrEMBL
  SET_dom_sf 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 UniProtKB/TrEMBL
  WW_dom_sf UniProtKB/TrEMBL
NCBI Gene SETD2 ENTREZGENE
PANTHER HISTONE-LYSINE N-METHYLTRANSFERASE SETD2 UniProtKB/TrEMBL
  PTHR46711 UniProtKB/TrEMBL
Pfam AWS UniProtKB/TrEMBL
  PF00397 UniProtKB/TrEMBL
  SET UniProtKB/TrEMBL
  SRI UniProtKB/TrEMBL
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 SSF51045 UniProtKB/TrEMBL
  SSF82199 UniProtKB/TrEMBL
UniProt A0A287B896_PIG UniProtKB/TrEMBL
  A0A4X1T5F4_PIG UniProtKB/TrEMBL
  A0A4X1T5Q3 ENTREZGENE, UniProtKB/TrEMBL
  A0A8D0M5H4_PIG UniProtKB/TrEMBL
  A0A8D0M5K4_PIG UniProtKB/TrEMBL
  A0A8D0M5U2_PIG UniProtKB/TrEMBL
  A0A8D0M6M3_PIG UniProtKB/TrEMBL
  A0A8D0RY48_PIG UniProtKB/TrEMBL
  A0A8D0WBM5_PIG UniProtKB/TrEMBL
  A0A8D0WD95_PIG UniProtKB/TrEMBL
  A0A8D0WEP2_PIG UniProtKB/TrEMBL
  A0A8D1E387_PIG UniProtKB/TrEMBL
  A0A8D1HLG1_PIG UniProtKB/TrEMBL
  A0A8W4FBM4_PIG UniProtKB/TrEMBL
VGNC ID VGNC:92757 ENTREZGENE