Variant report

Variant	rs11140238
Chromosome Location	chr9:86374730-86374731
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 49 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:47)

rs_ID	r²[population]
rs11140178	0.85[EUR][1000 genomes]
rs11140179	1.00[EUR][1000 genomes]
rs11140182	1.00[EUR][1000 genomes]
rs11140183	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs11140191	1.00[EUR][1000 genomes]
rs11140192	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs11140197	0.86[EUR][1000 genomes]
rs11140199	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs11140203	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs11140215	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs11140217	1.00[EUR][1000 genomes]
rs11140219	1.00[EUR][1000 genomes]
rs11140225	1.00[EUR][1000 genomes]
rs11140228	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11140229	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11140230	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11140235	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11140248	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11140250	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11140252	1.00[CHB][hapmap];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11140254	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11140257	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11140258	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11140266	0.92[EUR][1000 genomes]
rs11140269	0.85[EUR][1000 genomes]
rs11140270	0.85[EUR][1000 genomes]
rs11140280	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs11140288	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs11140291	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs11140294	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs11140308	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs11140310	1.00[CEU][hapmap];1.00[CHB][hapmap]
rs11559387	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[EUR][1000 genomes]
rs11560627	1.00[EUR][1000 genomes]
rs12235151	0.92[EUR][1000 genomes]
rs12235969	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs12236455	0.92[EUR][1000 genomes]
rs12236743	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs12237262	1.00[EUR][1000 genomes]
rs12237555	1.00[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs12238365	1.00[EUR][1000 genomes]
rs12238575	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs2282221	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs2282222	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs28627139	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28655802	0.86[EUR][1000 genomes]
rs3763626	1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1044639	chr9:86252505-86412041	Strong transcription Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	21 gene(s)	inside rSNPs	diseases
2	nsv893513	chr9:86298632-86433459	Enhancers Active TSS Weak transcription Genic enhancers Strong transcription ZNF genes & repeats Flanking Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:38 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:86348400-86415400	Weak transcription	Fetal Heart	heart
2	chr9:86350000-86431600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
3	chr9:86350800-86407000	Weak transcription	Primary B cells from cord blood	blood
4	chr9:86351000-86393200	Weak transcription	Brain Inferior Temporal Lobe	brain
5	chr9:86352000-86411800	Weak transcription	Ovary	ovary
6	chr9:86352600-86377800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
7	chr9:86352600-86398200	Weak transcription	Fetal Brain Female	brain
8	chr9:86352800-86383200	Weak transcription	Duodenum Smooth Muscle	Duodenum
9	chr9:86353000-86432000	Weak transcription	Lung	lung
10	chr9:86354800-86380800	Weak transcription	Primary T helper cells PMA-I stimulated	--
11	chr9:86357800-86398800	Weak transcription	Pancreas	Pancrea
12	chr9:86362600-86376200	Weak transcription	Primary hematopoietic stem cells	blood
13	chr9:86362800-86374800	Weak transcription	Gastric	stomach
14	chr9:86362800-86376400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
15	chr9:86363800-86412400	Weak transcription	HepG2	liver
16	chr9:86363800-86431200	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
17	chr9:86364800-86412000	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
18	chr9:86364800-86413400	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
19	chr9:86365600-86375200	Weak transcription	Brain Germinal Matrix	brain
20	chr9:86366400-86375600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
21	chr9:86367000-86413600	Weak transcription	Rectal Mucosa Donor 29	rectum
22	chr9:86367200-86397600	Weak transcription	Skeletal Muscle Female	skeletal muscle
23	chr9:86367400-86411800	Weak transcription	Brain Substantia Nigra	brain
24	chr9:86367600-86375800	Weak transcription	Fetal Intestine Large	intestine
25	chr9:86367600-86376200	Weak transcription	Primary T cells from cord blood	blood
26	chr9:86367600-86376400	Weak transcription	Brain Hippocampus Middle	brain
27	chr9:86367600-86412000	Weak transcription	Skeletal Muscle Male	skeletal muscle
28	chr9:86367800-86376800	Weak transcription	Primary T helper cells fromperipheralblood	blood
29	chr9:86367800-86397000	Weak transcription	Fetal Stomach	stomach
30	chr9:86367800-86397800	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
31	chr9:86368000-86379200	Weak transcription	Thymus	Thymus
32	chr9:86368000-86398200	Weak transcription	Left Ventricle	heart
33	chr9:86368000-86398800	Weak transcription	Aorta	Aorta
34	chr9:86370800-86379600	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
35	chr9:86371600-86397000	Weak transcription	Fetal Intestine Small	intestine
36	chr9:86373200-86411800	Weak transcription	Stomach Smooth Muscle	stomach
37	chr9:86374600-86375200	Strong transcription	Liver	Liver
38	chr9:86374600-86378200	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Male	--

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