Setd9-ps (SET domain containing 9, pseudogene) - Rat Genome Database

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Gene: Setd9-ps (SET domain containing 9, pseudogene) Mus musculus
Analyze
Symbol: Setd9-ps
Name: SET domain containing 9, pseudogene
RGD ID: 30309830
MGI Page MGI
Description: ASSOCIATED WITH high grade glioma (ortholog); Neurodevelopmental Disorders (ortholog); INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine (ortholog); acrylamide (ortholog); aflatoxin B1 (ortholog)
Type: pseudo (Ensembl: unitary_pseudogene)
RefSeq Status: INFERRED
Previously known as: Gm15488
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
GRCm3913111,858,051 - 111,860,850 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl13111,858,013 - 111,860,868 (-)EnsemblGRCm39 Ensembl
GRCm3813111,721,517 - 111,724,316 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl13111,721,479 - 111,724,334 (-)EnsemblGRCm38mm10GRCm38
Cytogenetic Map13D2.2NCBI
cM Map1363.36NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

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

Genomics

Comparative Map Data
Setd9-ps
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm3913111,858,051 - 111,860,850 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl13111,858,013 - 111,860,868 (-)EnsemblGRCm39 Ensembl
GRCm3813111,721,517 - 111,724,316 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl13111,721,479 - 111,724,334 (-)EnsemblGRCm38mm10GRCm38
Cytogenetic Map13D2.2NCBI
cM Map1363.36NCBI
SETD9
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38556,909,260 - 56,928,900 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl556,909,260 - 56,925,532 (+)EnsemblGRCh38hg38GRCh38
GRCh37556,205,087 - 56,224,727 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36556,240,857 - 56,248,767 (+)NCBINCBI36Build 36hg18NCBI36
Celera553,159,295 - 53,175,568 (+)NCBICelera
Cytogenetic Map5q11.2NCBI
HuRef553,177,007 - 53,193,280 (+)NCBIHuRef
CHM1_1556,208,094 - 56,224,366 (+)NCBICHM1_1
T2T-CHM13v2.0557,737,511 - 57,757,157 (+)NCBIT2T-CHM13v2.0
Setd9-ps1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8245,052,682 - 45,056,085 (-)NCBIGRCr8
mRatBN7.2243,319,359 - 43,322,764 (-)NCBImRatBN7.2mRatBN7.2
UTH_Rnor_SHR_Utx250,435,585 - 50,438,985 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0248,494,040 - 48,497,440 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0243,345,554 - 43,348,955 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0243,298,112 - 43,301,515 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.0262,344,100 - 62,349,860 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4243,030,755 - 43,038,315 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera239,104,960 - 39,108,363 (-)NCBICelera
Cytogenetic Map2q14NCBI
Setd9
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495544610,994,352 - 11,004,924 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495544610,994,388 - 11,004,034 (-)NCBIChiLan1.0ChiLan1.0
SETD9
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2457,003,568 - 57,015,000 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1555,157,199 - 55,168,680 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0557,093,340 - 57,103,500 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1558,712,170 - 58,732,480 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl558,724,521 - 58,732,478 (-)Ensemblpanpan1.1panPan2
SETD9
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1244,046,549 - 44,073,781 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl244,046,605 - 44,073,536 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha241,107,851 - 41,135,469 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0244,528,554 - 44,556,172 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl244,528,574 - 44,535,729 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1241,605,367 - 41,632,981 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0242,408,810 - 42,436,429 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0243,228,779 - 43,256,229 (+)NCBIUU_Cfam_GSD_1.0
Setd9
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024407213202,095,855 - 202,105,854 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_00493648011,033,996 - 11,041,827 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_00493648011,034,128 - 11,042,782 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
SETD9
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1635,980,201 - 35,996,722 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11635,978,960 - 35,987,161 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21638,245,927 - 38,253,081 (+)NCBISscrofa10.2Sscrofa10.2susScr3
SETD9
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1453,133,733 - 53,141,985 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl453,134,117 - 53,141,965 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_0236660492,025,575 - 2,033,891 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Setd9
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046247592,326,321 - 2,337,753 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046247592,326,938 - 2,337,784 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Setd9-ps
89 total Variants

QTLs in Region (GRCm39)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1300876Tanidd2_mtally ho associated non-insulin dependednt diabetes mellitus 2 (mouse)Not determined1391965303120883175Mouse
1301142Heal2_mwound healing/regeneration 2 (mouse)Not determined1393875267120883175Mouse
1300939Hrtfm6_mheart failure modifier 6 (mouse)Not determined1391383692120883175Mouse
1558763Gct9_mgranulosa cell tumorigenesis 9 (mouse)Not determined1395036824120883175Mouse
1357468Rplag_mreduced platelet aggregation (mouse)Not determined1395502130120883175Mouse
1558741Ses10_msalmonella enteritidis susceptibility 10 (mouse)Not determined1382739968116740106Mouse
4140959W10q17_mweight 10 weeks QTL 17 (mouse)Not determined55720354112431103Mouse
4140995Fbtq6_mfemoral bone trait QTL 6 (mouse)Not determined1386341617120341758Mouse
4141266Mol3_mmodifier of LPS-response 3 (mouse)Not determined76132600112431103Mouse
4142465Pbwg17_mpostnatal body weight growth 17 (mouse)Not determined1383876060117876256Mouse
4141826Tbqt5_mtibia bone quality traits 5 (mouse)Not determined13103341617117043216Mouse
4141992W6q16_mweight 6 weeks QTL 16 (mouse)Not determined55720354112431103Mouse
4142147Mvwf4_mmodifier of von Willebrand factor 4 (mouse)Not determined20477612112898424Mouse
4142241Tailq3_mtail length QTL 3 (mouse)Not determined55720354112431103Mouse
4142314Tailaq3_mtail length adjusted QTL 3 (mouse)Not determined55720354112431103Mouse
4141704Hipq1_mhyperinsulin production QTL 1 (mouse)Not determined110409487119476372Mouse
4142334Svtms_msurvival time modifier of Sod2 (mouse)Not determined13107613580119476372Mouse
4142338Skmw18_mskeletal muscle weight 18 (mouse)Not determined1394528399120883175Mouse
4141728Egaq4_mearly growth adjusted QTL 4 (mouse)Not determined87901985112431103Mouse
4142400Tgq24_mtriglyceride QTL 24 (mouse)Not determined102602630120883175Mouse
10043997Bw40_mbody weight QTL 40 (mouse)Not determined1479239045113239162Mouse
10045623Heal18_mwound healing regeneration 18 (mouse)Not determined1379239045113239162Mouse
12880414V125Dq10_mvitamin D active form serum level QTL 10 (mouse)1378036508112036508Mouse
12879496Fexq2_mfear expression QTL 2 (mouse)13100741519120883175Mouse
13824989Pbsq1_mpercent broken sperm QTL 1 (mouse)13102136508112136534Mouse
14700691Cisaq1_mcoxsackieviral infection serum ALT QTL 1 (mouse)1386148119120461536Mouse
14746974Manh75_mmandible shape 75 (mouse)1399386647120883175Mouse


Expression


Sequence

Nucleotide Sequences
RefSeq Transcripts NG_034081 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AC118704 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSMUST00000121682
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl13111,858,013 - 111,860,868 (-)Ensembl
GRCm38.p6 Ensembl13111,721,479 - 111,724,334 (-)Ensembl

Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSMUSG00000084217 Ensembl, ENTREZGENE
MGD MGI:3705835 ENTREZGENE
NCBI Gene Gm15488 ENTREZGENE
PhenoGen Setd9-ps PhenoGen


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2020-06-29 Setd9-ps  SET domain containing 9, pseudogene  Gm15488  predicted gene 15488  Symbol and/or name updated 27372883 PROVISIONAL