Variant report

Variant	rs6931813
Chromosome Location	chr6:15923485-15923486
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:15921346..15923754-chr6:15927651..15930259,4	K562	blood:
2	chr6:15922948..15926543-chr6:16128347..16132310,5	K562	blood:
3	chr6:15882525..15884862-chr6:15922870..15925036,2	K562	blood:
4	chr6:15915036..15924551-chr6:16129181..16135842,15	K562	blood:
5	chr6:15921762..15925061-chr6:15925136..15927911,3	MCF-7	breast:
6	chr6:15921188..15923824-chr6:16129330..16131247,3	MCF-7	breast:
7	chr6:15909137..15912614-chr6:15921343..15924377,3	K562	blood:

Variant related genes	Relation type
ENSG00000007944	Chromatin interaction

Extended variants
information (count: 20 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:20)

rs_ID	r²[population]
rs12332932	1.00[CEU][hapmap];1.00[CHB][hapmap];0.88[YRI][hapmap];0.83[AFR][1000 genomes];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs16877320	1.00[CEU][hapmap]
rs16877335	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.88[JPT][hapmap];0.98[LWK][hapmap];1.00[MEX][hapmap];0.92[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs16877356	1.00[CHB][hapmap];1.00[CHD][hapmap];0.88[JPT][hapmap];1.00[ASN][1000 genomes]
rs28374372	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs28439195	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs28675672	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs34348178	0.99[ASN][1000 genomes]
rs6932716	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.91[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72825643	0.85[ASN][1000 genomes]
rs72825644	0.85[ASN][1000 genomes]
rs73370392	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs73370398	0.89[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs73372206	0.97[AFR][1000 genomes];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7739957	0.87[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.98[LWK][hapmap];1.00[MEX][hapmap];0.92[TSI][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7754622	0.90[AFR][1000 genomes];0.97[AMR][1000 genomes];0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9476982	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.96[AFR][1000 genomes];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9476983	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9476984	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9476987	1.00[CEU][hapmap];1.00[CHB][hapmap];0.88[JPT][hapmap];0.92[YRI][hapmap];0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs6931813	JARID2	cis	lymphoblastoid	seeQTL

Chromatin state (count:21 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:15920200-15924600	Enhancers	Placenta	Placenta
2	chr6:15921400-15924000	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
3	chr6:15921600-15924200	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
4	chr6:15921600-15924400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
5	chr6:15921600-15927600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
6	chr6:15921600-15929400	Weak transcription	Adipose Nuclei	Adipose
7	chr6:15922000-15924200	Enhancers	Placenta Amnion	Placenta Amnion
8	chr6:15922000-15924400	Enhancers	HUVEC	blood vessel
9	chr6:15922000-15926600	Weak transcription	Monocytes-CD14+_RO01746	blood
10	chr6:15922200-15923800	Enhancers	Primary hematopoietic stem cells	blood
11	chr6:15922200-15924400	Enhancers	K562	blood
12	chr6:15922400-15923600	Enhancers	Fetal Stomach	stomach
13	chr6:15922400-15923800	Enhancers	NHDF-Ad	bronchial
14	chr6:15922600-15923600	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
15	chr6:15922600-15923600	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
16	chr6:15922600-15924000	Enhancers	Breast Myoepithelial Primary Cells	Breast
17	chr6:15922600-15925200	Enhancers	Fetal Muscle Leg	muscle
18	chr6:15923200-15923600	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
19	chr6:15923200-15924000	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
20	chr6:15923200-15924000	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
21	chr6:15923400-15923600	Enhancers	Primary hematopoietic stem cells short term culture	blood

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