Jarid2 (jumonji and AT-rich interaction domain containing 2) - Rat Genome Database

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Gene: Jarid2 (jumonji and AT-rich interaction domain containing 2) Rattus norvegicus
Analyze
Symbol: Jarid2
Name: jumonji and AT-rich interaction domain containing 2
RGD ID: 1591663
Description: Predicted to have several functions, including chromatin binding activity; histone demethylase activity; and transcription factor binding activity. Involved in negative regulation of cardiac muscle cell proliferation and negative regulation of cardiac muscle hypertrophy. Predicted to localize to ESC/E(Z) complex and mitochondrion. Human ortholog(s) of this gene implicated in autistic disorder. Orthologous to human JARID2 (jumonji and AT-rich interaction domain containing 2); PARTICIPATES IN histone modification pathway; INTERACTS WITH atrazine; bisphenol A; oxaliplatin.
Type: protein-coding
RefSeq Status: MODEL
Also known as: jumonji, AT rich interactive domain 2; LOC681740; similar to jumonji protein
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: Rnor_6.0 - RGSC Genome Assembly v6.0
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21719,777,487 - 19,957,696 (-)NCBI
Rnor_6.0 Ensembl1720,184,245 - 20,364,714 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.01720,183,440 - 20,365,219 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01722,193,534 - 22,368,495 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Celera1719,477,856 - 19,658,598 (-)NCBICelera
Cytogenetic Map17p14NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Molecular Pathway Annotations     Click to see Annotation Detail View
References

Additional References at PubMed
PMID:9376320   PMID:11301191   PMID:12890668   PMID:15870077   PMID:19010785   PMID:20064375   PMID:20064376   PMID:20075857   PMID:20439489   PMID:26523946   PMID:30253332   PMID:31451685  


Genomics

Comparative Map Data
Jarid2
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21719,777,487 - 19,957,696 (-)NCBI
Rnor_6.0 Ensembl1720,184,245 - 20,364,714 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.01720,183,440 - 20,365,219 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01722,193,534 - 22,368,495 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Celera1719,477,856 - 19,658,598 (-)NCBICelera
Cytogenetic Map17p14NCBI
JARID2
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl615,246,069 - 15,522,042 (+)EnsemblGRCh38hg38GRCh38
GRCh38615,245,975 - 15,522,042 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh37615,246,300 - 15,522,273 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36615,354,506 - 15,630,232 (+)NCBINCBI36hg18NCBI36
Build 34615,354,505 - 15,630,232NCBI
Celera616,484,424 - 16,760,206 (+)NCBI
Cytogenetic Map6p22.3NCBI
HuRef615,193,519 - 15,469,507 (+)NCBIHuRef
CHM1_1615,248,791 - 15,524,763 (+)NCBICHM1_1
Jarid2
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391344,881,817 - 45,075,119 (+)NCBIGRCm39mm39
GRCm39 Ensembl1344,882,950 - 45,075,119 (+)Ensembl
GRCm381344,730,774 - 44,921,643 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1344,729,474 - 44,921,643 (+)EnsemblGRCm38mm10GRCm38
MGSCv371344,826,272 - 45,016,350 (+)NCBIGRCm37mm9NCBIm37
MGSCv361344,741,875 - 44,931,953 (+)NCBImm8
Celera1345,807,063 - 45,996,635 (+)NCBICelera
Cytogenetic Map13A5NCBI
cM Map1321.66NCBI
Jarid2
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_004955590384,817 - 626,684 (-)EnsemblChiLan1.0
ChiLan1.0NW_004955590383,810 - 512,854 (-)NCBIChiLan1.0ChiLan1.0
JARID2
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.1615,466,681 - 15,740,928 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl615,466,050 - 15,739,170 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v0615,100,415 - 15,376,505 (+)NCBIMhudiblu_PPA_v0panPan3
JARID2
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.13514,476,656 - 14,737,535 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl3514,445,914 - 14,736,158 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha3514,425,042 - 14,685,518 (+)NCBI
ROS_Cfam_1.03514,573,294 - 14,834,551 (+)NCBI
UMICH_Zoey_3.13514,399,422 - 14,659,727 (+)NCBI
UNSW_CanFamBas_1.03514,450,826 - 14,711,538 (+)NCBI
UU_Cfam_GSD_1.03515,776,504 - 16,037,565 (+)NCBI
Jarid2
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_0244049469,944,101 - 10,164,788 (-)NCBI
SpeTri2.0NW_0049365521,566,382 - 1,786,837 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
JARID2
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl711,357,961 - 11,602,104 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1711,358,243 - 11,601,715 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2711,977,677 - 12,191,165 (+)NCBISscrofa10.2Sscrofa10.2susScr3
JARID2
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11756,651,752 - 56,928,650 (-)NCBI
ChlSab1.1 Ensembl1756,651,596 - 56,928,126 (-)Ensembl
Vero_WHO_p1.0NW_02366604415,284,556 - 15,562,330 (+)NCBI
Jarid2
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462475610,932,148 - 11,079,609 (-)NCBI

Position Markers
D13Mit179  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21719,924,168 - 19,924,242 (+)MAPPER
Rnor_6.01720,332,077 - 20,332,150NCBIRnor6.0
Rnor_5.01722,336,422 - 22,336,495UniSTSRnor5.0
RGSC_v3.41725,742,449 - 25,742,522UniSTSRGSC3.4
Celera1719,625,945 - 19,626,018UniSTS
RH129878  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21719,776,508 - 19,776,658 (+)MAPPER
Rnor_6.01720,182,180 - 20,182,329NCBIRnor6.0
Rnor_5.01722,192,935 - 22,193,084UniSTSRnor5.0
Celera1719,476,874 - 19,477,023UniSTS
RH 3.4 Map17248.3UniSTS
RH140095  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21719,926,075 - 19,926,293 (+)MAPPER
Rnor_6.01720,333,688 - 20,333,905NCBIRnor6.0
Rnor_5.01722,337,783 - 22,338,000UniSTSRnor5.0
RGSC_v3.41725,744,389 - 25,744,606UniSTSRGSC3.4
Celera1719,627,851 - 19,628,068UniSTS
RH 3.4 Map17246.9UniSTS
Jarid2  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21719,797,274 - 19,797,498 (+)MAPPER
Rnor_6.01720,202,407 - 20,202,630NCBIRnor6.0
Rnor_5.01722,213,019 - 22,213,242UniSTSRnor5.0
Celera1719,497,646 - 19,497,869UniSTS


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
9590316Scort21Serum corticosterone level QTL 214.750.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)17124787908Rat
10401807Kidm52Kidney mass QTL 52kidney mass (VT:0002707)both kidneys wet weight (CMO:0000085)17132230361Rat
70184BpQTLcluster14Blood pressure QTL cluster 143.38arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)17133303755Rat
631207Niddm41Non-insulin dependent diabetes mellitus QTL 41blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)17138243814Rat
1354658Spl8Serum phospholipid level QTL 83.8blood VLDL phospholipid amount (VT:0010507)blood very low density lipoprotein phospholipid level (CMO:0001571)17163676140Rat
1354662Rf49Renal function QTL 492.9blood creatinine amount (VT:0005328)plasma creatinine level (CMO:0000537)17173413148Rat
1354581Bp247Blood pressure QTL 2474.5arterial blood pressure trait (VT:2000000)pulse pressure (CMO:0000292)17173413148Rat
1641902Colcr7Colorectal carcinoma resistance QTL 73.350.0044intestine integrity trait (VT:0010554)benign colorectal tumor surface area measurement (CMO:0001799)1751977023422380Rat
1300123Bp194Blood pressure QTL 1942.82arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1751977036283402Rat
2324619Coatc4Coat color QTL 40.001coat/hair pigmentation trait (VT:0010463)pigmented dorsal coat/hair area to total dorsal coat/hair area ratio (CMO:0001811)17333697224030841Rat
2324619Coatc4Coat color QTL 40.001coat/hair pigmentation trait (VT:0010463)pigmented coat/hair area to total coat/hair area ratio (CMO:0001810)17333697224030841Rat
1354613Kidm14Kidney mass QTL 146.2kidney mass (VT:0002707)left kidney wet weight (CMO:0000083)17333697237790462Rat
1354596Bw32Body weight QTL 324.5body mass (VT:0001259)body weight (CMO:0000012)17333697263676140Rat
1354638Insul1Insulin level QTL 14.8blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)17333697273413148Rat
1354651Lmblg2Limb length QTL 26tibia length (VT:0004357)tibia length (CMO:0000450)17333697273413148Rat
1354630Cm34Cardiac mass QTL 348.7heart left ventricle mass (VT:0007031)heart left ventricle wet weight (CMO:0000071)17333697273413148Rat
631499Stl1Serum triglyceride level QTL 13.6blood triglyceride amount (VT:0002644)blood triglyceride level (CMO:0000118)17341403928073589Rat
2293648Bmd31Bone mineral density QTL 314.50.0001femur size trait (VT:1000369)femoral neck cortical cross-sectional area (CMO:0001702)17471606727691136Rat
2293664Bmd28Bone mineral density QTL 285.10.0001femur mineral mass (VT:0010011)trabecular volumetric bone mineral density (CMO:0001729)17471606727691136Rat
2303627Vencon8Ventilatory control QTL 80.001respiration trait (VT:0001943)tidal volume (CMO:0000222)17519104750191047Rat
10054088Scort28Serum corticosterone level QTL 282.040.0102blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)17519104750191047Rat
1582224Epfw4Epididymal fat weight QTL 43.50.0058epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)17973026321491085Rat
1582225Bw67Body weight QTL 676.20.0001body mass (VT:0001259)body weight (CMO:0000012)17973026321491085Rat
1582226Bw64Body weight QTL 644.20.0017body mass (VT:0001259)body weight (CMO:0000012)17973026321491085Rat
1582241Bw70Body weight QTL 704.60.0003body mass (VT:0001259)body weight (CMO:0000012)17973026321491085Rat
1582245Bw73Body weight QTL 734.60.0004body mass (VT:0001259)body weight (CMO:0000012)17973026321491085Rat
1582258Bw76Body weight QTL 764.60.0005body mass (VT:0001259)body weight (CMO:0000012)17973026321491085Rat
1582199Insul5Insulin level QTL 53.40.0119blood insulin amount (VT:0001560)calculated serum insulin level (CMO:0000359)17973026321491085Rat
1582208Kidm32Kidney mass QTL 323.90.0018kidney mass (VT:0002707)both kidneys wet weight (CMO:0000085)17973026321491085Rat
2303561Bw91Body weight QTL 912body mass (VT:0001259)body weight (CMO:0000012)17982730454827304Rat
2300002Iddm36Insulin dependent diabetes mellitus QTL 361.98blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)171052970942542027Rat
1549900Iddm20Insulin dependent diabetes mellitus QTL 203.7pancreas integrity trait (VT:0010560)percentage of study population developing diabetes mellitus during a period of time (CMO:0001114)171400967923316697Rat
1331720Rf43Renal function QTL 432.881kidney blood vessel physiology trait (VT:0100012)absolute change in renal vascular resistance (CMO:0001900)171574375522711729Rat
1331765Hrtrt15Heart rate QTL 154.094heart pumping trait (VT:2000009)heart rate (CMO:0000002)171574375561036897Rat
1354640Scl32Serum cholesterol level QTL 325.4blood HDL cholesterol amount (VT:0000184)blood high density lipoprotein cholesterol level (CMO:0000052)171867614063676140Rat
1354659Scl68Serum cholesterol level QTL 683.9blood VLDL cholesterol amount (VT:0005144)blood very low density lipoprotein cholesterol level (CMO:0000648)171867614063676140Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:54
Count of miRNA genes:28
Interacting mature miRNAs:31
Transcripts:ENSRNOT00000070962, ENSRNOT00000071374
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 28 40 24 19 24 2 2 74 35 41 11 2
Low 15 17 17 17 6 9 6
Below cutoff

Sequence

Nucleotide Sequences
RefSeq Transcripts XM_006222365 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006253776 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008771567 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008773944 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017587710 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017587711 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017587712 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017587713 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017587714 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017600707 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017600708 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017600709 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017600710 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017600711 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039096472 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039096473 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039096474 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide CH473977 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JACYVU010000288 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSRNOT00000070962   ⟹   ENSRNOP00000067055
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1720,184,245 - 20,364,714 (-)Ensembl
RefSeq Acc Id: XM_006222365   ⟹   XP_006222427
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Celera1719,477,856 - 19,654,927 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006253776   ⟹   XP_006253838
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01720,183,440 - 20,361,186 (-)NCBI
Rnor_5.01722,193,534 - 22,368,495 (-)NCBI
Sequence:
RefSeq Acc Id: XM_008771567   ⟹   XP_008769789
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01720,183,440 - 20,297,401 (-)NCBI
Sequence:
RefSeq Acc Id: XM_008773944   ⟹   XP_008772166
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Celera1719,477,856 - 19,591,257 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017587710   ⟹   XP_017443199
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Celera1719,477,856 - 19,555,842 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017587711   ⟹   XP_017443200
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Celera1719,477,856 - 19,658,096 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017587712   ⟹   XP_017443201
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Celera1719,477,856 - 19,658,598 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017587713   ⟹   XP_017443202
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Celera1719,477,856 - 19,658,096 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017587714   ⟹   XP_017443203
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Celera1719,477,856 - 19,572,377 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017600707   ⟹   XP_017456196
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21719,777,487 - 19,852,919 (-)NCBI
Rnor_6.01720,183,440 - 20,261,913 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017600708   ⟹   XP_017456197
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21719,777,487 - 19,956,496 (-)NCBI
Rnor_6.01720,183,440 - 20,364,717 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017600709   ⟹   XP_017456198
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21719,777,487 - 19,957,039 (-)NCBI
Rnor_6.01720,183,440 - 20,365,219 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017600710   ⟹   XP_017456199
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21719,777,487 - 19,956,496 (-)NCBI
Rnor_6.01720,183,440 - 20,364,717 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017600711   ⟹   XP_017456200
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21719,777,487 - 19,953,367 (-)NCBI
Rnor_6.01720,183,440 - 20,278,256 (-)NCBI
Sequence:
RefSeq Acc Id: XM_039096472   ⟹   XP_038952400
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21719,777,487 - 19,953,574 (-)NCBI
RefSeq Acc Id: XM_039096473   ⟹   XP_038952401
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21719,777,487 - 19,956,202 (-)NCBI
RefSeq Acc Id: XM_039096474   ⟹   XP_038952402
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21719,777,487 - 19,957,696 (-)NCBI
Reference Sequences
RefSeq Acc Id: XP_006222427   ⟸   XM_006222365
- Peptide Label: isoform X4
- Sequence:
RefSeq Acc Id: XP_006253838   ⟸   XM_006253776
- Peptide Label: isoform X4
- Sequence:
RefSeq Acc Id: XP_008772166   ⟸   XM_008773944
- Peptide Label: isoform X3
- Sequence:
RefSeq Acc Id: XP_008769789   ⟸   XM_008771567
- Peptide Label: isoform X3
- Sequence:
RefSeq Acc Id: XP_017443201   ⟸   XM_017587712
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: XP_017443202   ⟸   XM_017587713
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: XP_017443200   ⟸   XM_017587711
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: XP_017443203   ⟸   XM_017587714
- Peptide Label: isoform X4
- Sequence:
RefSeq Acc Id: XP_017443199   ⟸   XM_017587710
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_017456198   ⟸   XM_017600709
- Peptide Label: isoform X3
- UniProtKB: M0RBV7 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_017456199   ⟸   XM_017600710
- Peptide Label: isoform X3
- UniProtKB: M0RBV7 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_017456197   ⟸   XM_017600708
- Peptide Label: isoform X3
- UniProtKB: M0RBV7 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_017456200   ⟸   XM_017600711
- Peptide Label: isoform X4
- Sequence:
RefSeq Acc Id: XP_017456196   ⟸   XM_017600707
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: ENSRNOP00000067055   ⟸   ENSRNOT00000070962
RefSeq Acc Id: XP_038952402   ⟸   XM_039096474
- Peptide Label: isoform X3
RefSeq Acc Id: XP_038952401   ⟸   XM_039096473
- Peptide Label: isoform X3
RefSeq Acc Id: XP_038952400   ⟸   XM_039096472
- Peptide Label: isoform X2
Protein Domains
ARID   JmjC   JmjN

Transcriptome

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


Strain Variation

Strain Sequence Variants (Rnor 6.0)
ACI/EurMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
ACI/EurMcwi (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
ACI/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
BBDP/Wor (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
BN/SsN (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
Buf/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
COP/CrCrl (MCW & UW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
University of Wisconsin (Dr. James Shull)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Charles River Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob) and UW Madison (Dr. James Shull)
F344/NCrl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
F344/NRrrc (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
FHH/EurMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHH/EurMcwi (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
FHL/EurMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHL/EurMcwi (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
GH/OmrMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
GK/Ox (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LE/Stm (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/Crl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/NCrlBR (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LH/MavRrrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LL/MavRrrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LN/MavRrrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
M520/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
MHS/Gib (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MNS/Gib (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MR/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
SBH/Ygl (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBH/Ygl sequenced by MCW
SBH/Ygl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SBN/Ygl (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBN/Ygl sequenced by MCW
SBN/Ygl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHR/NHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHRSP/Gcrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SR/JrHsd (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Harlan Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SR/JrHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/Jr (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/JrHsdMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SS/JrHsdMcwi (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WAG/Rij (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/Gcrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
WKY/NCrl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/NHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WN/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1591663 AgrOrtholog
Ensembl Genes ENSRNOG00000045918 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000067055 ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000070962 UniProtKB/TrEMBL
Gene3D-CATH 1.10.150.60 UniProtKB/TrEMBL
InterPro ARID/BRIGHT_DNA-bd UniProtKB/TrEMBL
  ARID_dom_sf UniProtKB/TrEMBL
  JmjC_dom UniProtKB/TrEMBL
  TF_JmjN UniProtKB/TrEMBL
  Znf_C5HC2 UniProtKB/TrEMBL
NCBI Gene 681740 ENTREZGENE
Pfam ARID UniProtKB/TrEMBL
  JmjC UniProtKB/TrEMBL
  JmjN UniProtKB/TrEMBL
  zf-C5HC2 UniProtKB/TrEMBL
PhenoGen Jarid2 PhenoGen
PROSITE ARID UniProtKB/TrEMBL
  JMJC UniProtKB/TrEMBL
  JMJN UniProtKB/TrEMBL
SMART BRIGHT UniProtKB/TrEMBL
  JmjC UniProtKB/TrEMBL
  JmjN UniProtKB/TrEMBL
Superfamily-SCOP ARID UniProtKB/TrEMBL
UniProt M0RBV7 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2015-11-25 Jarid2  jumonji and AT-rich interaction domain containing 2  Jarid2  jumonji, AT rich interactive domain 2  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2013-08-09 Jarid2  jumonji, AT rich interactive domain 2  LOC681740  similar to jumonji protein  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2006-11-20 LOC681740  similar to jumonji protein      Symbol and Name status set to provisional 70820 PROVISIONAL