Variant report

Variant	rs9296258
Chromosome Location	chr6:12084445-12084446
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:12082609..12085210-chr6:12112679..12114634,2	K562	blood:
2	chr6:12082403..12085689-chr6:12087080..12089060,3	K562	blood:
3	chr6:12078164..12081680-chr6:12081871..12086825,6	K562	blood:
4	chr6:12077082..12079986-chr6:12084053..12086000,2	K562	blood:

Extended variants
information (count: 36 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:36)

rs_ID	r²[population]
rs10947758	0.89[CHB][hapmap];0.89[ASN][1000 genomes]
rs10947793	0.80[ASN][1000 genomes]
rs12199075	0.80[ASN][1000 genomes]
rs12210300	0.82[CEU][hapmap];0.83[CHB][hapmap];0.83[JPT][hapmap];0.85[ASN][1000 genomes]
rs12213070	0.94[CHB][hapmap];0.80[CHD][hapmap];0.89[JPT][hapmap];0.82[ASN][1000 genomes]
rs13193986	0.85[ASN][1000 genomes]
rs13206426	0.87[ASN][1000 genomes]
rs13209918	0.94[CHB][hapmap];0.89[JPT][hapmap];0.80[ASN][1000 genomes]
rs1998528	0.94[CHB][hapmap];0.88[JPT][hapmap];0.82[ASN][1000 genomes]
rs2228209	0.94[CHB][hapmap];0.89[JPT][hapmap];0.84[ASN][1000 genomes]
rs2228210	0.94[CHB][hapmap];0.89[JPT][hapmap];0.84[ASN][1000 genomes]
rs2228213	0.94[CHB][hapmap];0.80[CHD][hapmap];0.89[JPT][hapmap];0.82[ASN][1000 genomes]
rs2228215	0.94[CHB][hapmap];0.80[CHD][hapmap];0.89[JPT][hapmap];0.83[ASN][1000 genomes]
rs3777755	0.91[CHB][hapmap];0.88[JPT][hapmap]
rs3777760	0.94[CHB][hapmap];0.88[JPT][hapmap];0.82[ASN][1000 genomes]
rs3777761	0.94[CHB][hapmap];0.89[JPT][hapmap];0.82[ASN][1000 genomes]
rs3777776	0.81[CEU][hapmap];0.93[CHB][hapmap];0.87[JPT][hapmap];0.81[ASN][1000 genomes]
rs3822925	0.94[CHB][hapmap];0.89[JPT][hapmap];0.82[ASN][1000 genomes]
rs4377779	0.93[CHB][hapmap];0.88[JPT][hapmap];0.84[ASN][1000 genomes]
rs4467770	0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.94[MEX][hapmap];0.86[TSI][hapmap];0.85[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4714201	0.83[ASN][1000 genomes]
rs4714232	0.80[ASN][1000 genomes]
rs6939913	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs7383768	0.82[CEU][hapmap];0.94[CHB][hapmap];0.89[JPT][hapmap];0.81[ASN][1000 genomes]
rs7752678	0.94[CHB][hapmap];0.88[JPT][hapmap];0.87[ASN][1000 genomes]
rs9357299	0.82[CEU][hapmap];0.94[CHB][hapmap];0.89[JPT][hapmap];0.81[ASN][1000 genomes]
rs9366985	0.87[ASN][1000 genomes]
rs9369076	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs9369083	0.94[CHB][hapmap];0.80[CHD][hapmap];0.89[JPT][hapmap];0.87[ASN][1000 genomes]
rs9369108	0.83[ASN][1000 genomes]
rs9380756	0.85[ASN][1000 genomes]
rs9380781	0.94[CHB][hapmap];0.80[CHD][hapmap];0.89[JPT][hapmap];0.87[ASN][1000 genomes]
rs9380790	0.94[CHB][hapmap];0.80[CHD][hapmap];0.89[JPT][hapmap];0.87[ASN][1000 genomes]
rs9380859	0.80[ASN][1000 genomes]
rs9394538	0.87[ASN][1000 genomes]
rs9394569	0.94[CHB][hapmap];0.89[JPT][hapmap];0.83[ASN][1000 genomes]

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs9296258	JARID2	cis	cerebellum	SCAN
rs9296258	C6orf218	cis	cerebellum	SCAN

Chromatin state (count:99 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:12061600-12085400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
2	chr6:12061600-12105200	Weak transcription	Duodenum Mucosa	Duodenum
3	chr6:12061600-12109600	Weak transcription	HUES6 Cell Line	embryonic stem cell
4	chr6:12065200-12095000	Weak transcription	NHDF-Ad	bronchial
5	chr6:12066400-12085000	Weak transcription	Gastric	stomach
6	chr6:12066400-12085200	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
7	chr6:12066400-12093000	Weak transcription	Fetal Thymus	thymus
8	chr6:12066400-12103600	Weak transcription	Pancreas	Pancrea
9	chr6:12066400-12107600	Weak transcription	Fetal Muscle Leg	muscle
10	chr6:12066800-12085400	Weak transcription	Right Ventricle	heart
11	chr6:12066800-12109600	Weak transcription	Skeletal Muscle Male	skeletal muscle
12	chr6:12068600-12090600	Weak transcription	Right Atrium	heart
13	chr6:12069600-12095200	Weak transcription	Rectal Mucosa Donor 31	rectum
14	chr6:12070000-12090600	Weak transcription	Rectal Mucosa Donor 29	rectum
15	chr6:12070800-12120400	Weak transcription	Placenta Amnion	Placenta Amnion
16	chr6:12071600-12091800	Weak transcription	Esophagus	oesophagus
17	chr6:12071600-12093000	Weak transcription	Primary T cells fromperipheralblood	blood
18	chr6:12071800-12094400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
19	chr6:12071800-12095400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
20	chr6:12071800-12098000	Weak transcription	NH-A	brain
21	chr6:12071800-12120400	Weak transcription	HepG2	liver
22	chr6:12072000-12093000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
23	chr6:12072200-12092400	Weak transcription	Thymus	Thymus
24	chr6:12072800-12089600	Weak transcription	HUVEC	blood vessel
25	chr6:12075400-12085400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
26	chr6:12075600-12085200	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
27	chr6:12075600-12085400	Weak transcription	Left Ventricle	heart
28	chr6:12075600-12088600	Weak transcription	Rectal Smooth Muscle	rectum
29	chr6:12075800-12093400	Weak transcription	Colonic Mucosa	Colon
30	chr6:12077800-12088800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
31	chr6:12077800-12098000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
32	chr6:12077800-12113400	Weak transcription	HMEC	breast
33	chr6:12078000-12109800	Weak transcription	Fetal Muscle Trunk	muscle
34	chr6:12078400-12085000	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
35	chr6:12078400-12089800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
36	chr6:12078600-12092200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
37	chr6:12078600-12093000	Weak transcription	Primary hematopoietic stem cells	blood
38	chr6:12079200-12103600	Weak transcription	Fetal Intestine Large	intestine
39	chr6:12079400-12085400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
40	chr6:12079400-12088800	Weak transcription	K562	blood
41	chr6:12079400-12089600	Weak transcription	NHEK	skin
42	chr6:12079400-12104600	Weak transcription	Fetal Intestine Small	intestine
43	chr6:12081200-12085800	Enhancers	Primary T helper naive cells fromperipheralblood	blood
44	chr6:12081600-12085600	Enhancers	Primary T helper cells PMA-I stimulated	--
45	chr6:12081800-12109800	Weak transcription	Aorta	Aorta
46	chr6:12082000-12085400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
47	chr6:12082000-12085400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
48	chr6:12082200-12085400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
49	chr6:12082200-12085400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
50	chr6:12082200-12085400	Weak transcription	Lung	lung

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