Variant report

Variant	rs10268916
Chromosome Location	chr7:6297956-6297957
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 38 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:23)

rs_ID	r²[population]
rs10224504	1.00[CHB][hapmap]
rs10241174	1.00[CHB][hapmap]
rs10244640	1.00[CHB][hapmap]
rs10245186	1.00[CEU][hapmap];0.95[GIH][hapmap];0.91[TSI][hapmap]
rs10247585	1.00[CHB][hapmap]
rs10252947	1.00[CHB][hapmap]
rs10253501	1.00[CHB][hapmap]
rs10267982	1.00[CHB][hapmap]
rs11976961	1.00[CEU][hapmap]
rs6463540	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[GIH][hapmap];1.00[TSI][hapmap]
rs6942707	1.00[CHB][hapmap]
rs6946205	1.00[CHB][hapmap]
rs6955065	1.00[CEU][hapmap];0.95[GIH][hapmap];0.91[TSI][hapmap]
rs6960965	1.00[CHB][hapmap]
rs6962767	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[GIH][hapmap];0.91[TSI][hapmap]
rs6969814	1.00[CEU][hapmap];1.00[CHB][hapmap]
rs6969863	1.00[CHB][hapmap]
rs7777433	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[GIH][hapmap];1.00[TSI][hapmap]
rs7783018	1.00[CHB][hapmap]
rs7791225	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[GIH][hapmap];0.91[TSI][hapmap]
rs7800777	1.00[CHB][hapmap]
rs7807841	1.00[CHB][hapmap]
rs958329	1.00[CHB][hapmap]

Variant overlapped rSNPs/rCNVs (count:15 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv533108	chr7:5488018-6316581	Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Active TSS Weak transcription Enhancers Genic enhancers Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	390 gene(s)	inside rSNPs	diseases
2	nsv948912	chr7:5803903-6623553	Active TSS Flanking Active TSS Weak transcription Strong transcription Enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	123 gene(s)	inside rSNPs	diseases
3	nsv1034060	chr7:5814823-6745710	Bivalent Enhancer Active TSS Weak transcription Flanking Active TSS Enhancers Genic enhancers Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	138 gene(s)	inside rSNPs	diseases
4	nsv538711	chr7:5814823-6745710	Weak transcription ZNF genes & repeats Flanking Active TSS Enhancers Active TSS Genic enhancers Strong transcription Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	138 gene(s)	inside rSNPs	diseases
5	nsv1028242	chr7:5819084-6645024	Flanking Active TSS Weak transcription Enhancers Bivalent/Poised TSS Strong transcription Bivalent Enhancer Active TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	127 gene(s)	inside rSNPs	diseases
6	nsv538712	chr7:5819084-6645024	Weak transcription Active TSS Genic enhancers Enhancers Bivalent Enhancer Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	127 gene(s)	inside rSNPs	diseases
7	nsv949531	chr7:5949371-6753694	Strong transcription Bivalent Enhancer Bivalent/Poised TSS Enhancers Weak transcription Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats Active TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	129 gene(s)	inside rSNPs	diseases
8	nsv1021037	chr7:6070792-6426966	Strong transcription Enhancers Flanking Active TSS Active TSS Weak transcription Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	64 gene(s)	inside rSNPs	diseases
9	nsv538713	chr7:6070792-6426966	Weak transcription Flanking Active TSS Enhancers Genic enhancers Active TSS Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	64 gene(s)	inside rSNPs	diseases
10	nsv530989	chr7:6176729-6438197	Strong transcription Enhancers Weak transcription Genic enhancers Active TSS Transcr. at gene 5' and 3' Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	19 gene(s)	inside rSNPs	diseases
11	nsv482829	chr7:6231809-6407606	Weak transcription Flanking Active TSS Enhancers Bivalent Enhancer Active TSS ZNF genes & repeats Strong transcription Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
12	nsv1032987	chr7:6246313-6373054	Weak transcription Flanking Active TSS Enhancers Genic enhancers Active TSS Bivalent Enhancer Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
13	nsv538714	chr7:6246313-6373054	Weak transcription Enhancers Flanking Active TSS Strong transcription Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
14	nsv1020236	chr7:6248930-6690377	Weak transcription Enhancers Flanking Active TSS Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Strong transcription Genic enhancers Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	52 gene(s)	inside rSNPs	diseases
15	nsv497874	chr7:6296768-6614902	Transcr. at gene 5' and 3' Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Active TSS Strong transcription Genic enhancers Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	30 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs10268916	PSCD3	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:104 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:6288200-6310400	Weak transcription	Brain Angular Gyrus	brain
2	chr7:6288400-6298400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
3	chr7:6288400-6300000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
4	chr7:6288400-6306600	Weak transcription	Esophagus	oesophagus
5	chr7:6289200-6300000	Weak transcription	H1 Cell Line	embryonic stem cell
6	chr7:6292400-6300000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
7	chr7:6293000-6306400	Weak transcription	NHEK	skin
8	chr7:6293400-6306600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
9	chr7:6293600-6298200	Enhancers	Fetal Adrenal Gland	Adrenal Gland
10	chr7:6293600-6299000	Enhancers	HSMMtube	muscle
11	chr7:6293800-6299000	Enhancers	HSMM	muscle
12	chr7:6293800-6299200	Enhancers	Stomach Mucosa	stomach
13	chr7:6294200-6303200	Weak transcription	Cortex derived primary cultured neurospheres	brain
14	chr7:6294400-6300600	Enhancers	A549	lung
15	chr7:6294400-6301200	Enhancers	Adipose Nuclei	Adipose
16	chr7:6294800-6298600	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
17	chr7:6295000-6298400	Enhancers	Skeletal Muscle Male	skeletal muscle
18	chr7:6295200-6298200	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
19	chr7:6295200-6299200	Enhancers	Primary hematopoietic stem cells	blood
20	chr7:6295200-6300200	Weak transcription	Brain Cingulate Gyrus	brain
21	chr7:6295600-6298200	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
22	chr7:6295600-6298800	Enhancers	HUES48 Cell Line	embryonic stem cell
23	chr7:6295600-6299000	Flanking Active TSS	GM12878-XiMat	blood
24	chr7:6295800-6298000	Enhancers	Rectal Smooth Muscle	rectum
25	chr7:6295800-6298400	Enhancers	Fetal Intestine Large	intestine
26	chr7:6295800-6298400	Enhancers	Skeletal Muscle Female	skeletal muscle
27	chr7:6295800-6299200	Enhancers	Primary T helper cells PMA-I stimulated	--
28	chr7:6295800-6299400	Enhancers	Primary T cells effector/memory enriched fromperipheralblood	blood
29	chr7:6296000-6299000	Enhancers	Primary T helper cells fromperipheralblood	blood
30	chr7:6296000-6299000	Enhancers	Primary T regulatory cells fromperipheralblood	blood
31	chr7:6296000-6299000	Enhancers	Dnd41	blood
32	chr7:6296000-6300800	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
33	chr7:6296200-6298400	Enhancers	Rectal Mucosa Donor 29	rectum
34	chr7:6296200-6299200	Enhancers	Primary B cells from peripheral blood	blood
35	chr7:6296200-6299200	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
36	chr7:6296400-6298800	Enhancers	Primary T helper naive cells from peripheral blood	blood
37	chr7:6296400-6298800	Enhancers	Primary T helper naive cells fromperipheralblood	blood
38	chr7:6296400-6299200	Enhancers	Primary T killer memory cells from peripheral blood	blood
39	chr7:6296400-6299400	Enhancers	Fetal Kidney	kidney
40	chr7:6296400-6299400	Enhancers	NH-A	brain
41	chr7:6296400-6300000	Weak transcription	Brain Hippocampus Middle	brain
42	chr7:6296600-6298400	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
43	chr7:6296600-6299000	Enhancers	Fetal Intestine Small	intestine
44	chr7:6296600-6300000	Weak transcription	Pancreas	Pancrea
45	chr7:6296600-6300200	Weak transcription	HUES6 Cell Line	embryonic stem cell
46	chr7:6296600-6300200	Enhancers	Muscle Satellite Cultured Cells	--
47	chr7:6296600-6300400	Weak transcription	Brain Anterior Caudate	brain
48	chr7:6296600-6303600	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
49	chr7:6296800-6298000	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
50	chr7:6296800-6298000	Enhancers	NHDF-Ad	bronchial

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