Variant report

Variant	rs12202278
Chromosome Location	chr6:161655950-161655951
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	SPI1	chr6:161655920-161656107	K562	blood:	n/a	n/a

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:161654520..161656556-chr6:161665296..161667922,2	K562	blood:

Variant related genes	Relation type
AGPAT4	TF binding region

Extended variants
information (count: 24 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:14)

rs_ID	r²[population]
rs1040723	1.00[JPT][hapmap]
rs10455876	0.84[AFR][1000 genomes];0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10455877	0.80[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12190239	0.85[CHB][hapmap];1.00[JPT][hapmap]
rs12207275	0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12215513	0.91[CEU][hapmap];0.92[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3757033	0.82[CHB][hapmap]
rs3778230	0.85[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3798953	0.82[CHB][hapmap]
rs3823058	0.82[CHB][hapmap]
rs6455713	0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7746735	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7769321	1.00[JPT][hapmap]
rs910721	1.00[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:10 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv886817	chr6:161371621-161846654	Strong transcription Enhancers Weak transcription Genic enhancers Active TSS ZNF genes & repeats Bivalent/Poised TSS Flanking Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases
2	esv3381361	chr6:161373617-161864101	Weak transcription Enhancers Genic enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
3	nsv949397	chr6:161592100-161812932	Weak transcription Strong transcription Flanking Active TSS Genic enhancers Enhancers ZNF genes & repeats Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
4	esv2752091	chr6:161592100-161855785	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Strong transcription Bivalent Enhancer Bivalent/Poised TSS Active TSS Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region	5 gene(s)	inside rSNPs	diseases
5	nsv1029727	chr6:161607680-161814295	Weak transcription Strong transcription Active TSS Enhancers Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
6	nsv1030623	chr6:161611170-161796985	Enhancers Weak transcription Genic enhancers Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
7	nsv538494	chr6:161611170-161796985	Flanking Active TSS Weak transcription Enhancers Strong transcription Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
8	nsv886818	chr6:161629323-161723705	Strong transcription Weak transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
9	nsv481931	chr6:161647026-161961906	Weak transcription Enhancers Genic enhancers Active TSS Flanking Active TSS ZNF genes & repeats Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	5 gene(s)	inside rSNPs	diseases
10	nsv533149	chr6:161653240-161769727	Active TSS Weak transcription Enhancers Flanking Active TSS Strong transcription Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:97 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:161636600-161656000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
2	chr6:161638200-161693800	Weak transcription	Fetal Intestine Small	intestine
3	chr6:161638600-161668000	Weak transcription	Sigmoid Colon	Sigmoid Colon
4	chr6:161639000-161666200	Weak transcription	Aorta	Aorta
5	chr6:161639200-161664400	Weak transcription	H9 Cell Line	embryonic stem cell
6	chr6:161647200-161663200	Weak transcription	Thymus	Thymus
7	chr6:161648000-161656800	Weak transcription	Primary B cells from peripheral blood	blood
8	chr6:161648000-161660600	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
9	chr6:161648800-161656800	Weak transcription	Right Ventricle	heart
10	chr6:161649400-161657400	Weak transcription	Primary T helper cells PMA-I stimulated	--
11	chr6:161649400-161662800	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
12	chr6:161649600-161693800	Weak transcription	Right Atrium	heart
13	chr6:161650000-161662800	Weak transcription	Primary T cells fromperipheralblood	blood
14	chr6:161650200-161656800	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
15	chr6:161650400-161658000	Enhancers	Brain Substantia Nigra	brain
16	chr6:161651000-161656800	Weak transcription	Primary hematopoietic stem cells short term culture	blood
17	chr6:161651000-161658800	Weak transcription	Esophagus	oesophagus
18	chr6:161651000-161663400	Weak transcription	Lung	lung
19	chr6:161651000-161677000	Weak transcription	Spleen	Spleen
20	chr6:161651200-161666000	Weak transcription	Primary T cells from cord blood	blood
21	chr6:161653200-161656800	Weak transcription	Primary monocytes fromperipheralblood	blood
22	chr6:161653200-161664200	Weak transcription	Monocytes-CD14+_RO01746	blood
23	chr6:161653400-161656600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
24	chr6:161653400-161659400	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
25	chr6:161653600-161656800	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
26	chr6:161653600-161657600	Enhancers	Brain Inferior Temporal Lobe	brain
27	chr6:161653600-161658200	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
28	chr6:161653600-161660800	Weak transcription	Fetal Kidney	kidney
29	chr6:161653800-161656600	Weak transcription	Primary hematopoietic stem cells	blood
30	chr6:161653800-161656600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
31	chr6:161653800-161657400	Enhancers	Cortex derived primary cultured neurospheres	brain
32	chr6:161653800-161658200	Enhancers	Brain Germinal Matrix	brain
33	chr6:161653800-161659600	Enhancers	Fetal Heart	heart
34	chr6:161653800-161693800	Weak transcription	Primary B cells from cord blood	blood
35	chr6:161654000-161664000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
36	chr6:161654200-161657400	Enhancers	Fetal Brain Female	brain
37	chr6:161654400-161656400	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
38	chr6:161654600-161656000	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
39	chr6:161654600-161656200	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
40	chr6:161654600-161656400	Enhancers	HUES64 Cell Line	embryonic stem cell
41	chr6:161654600-161656400	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
42	chr6:161654600-161656400	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
43	chr6:161654600-161657600	Enhancers	Fetal Stomach	stomach
44	chr6:161654600-161657600	Enhancers	K562	blood
45	chr6:161654800-161656000	Enhancers	NHDF-Ad	bronchial
46	chr6:161654800-161656200	Enhancers	iPS-20b Cell Line	embryonic stem cell
47	chr6:161654800-161656200	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
48	chr6:161654800-161656200	Enhancers	Fetal Adrenal Gland	Adrenal Gland
49	chr6:161654800-161656200	Enhancers	Placenta	Placenta
50	chr6:161654800-161656400	Enhancers	Brain Angular Gyrus	brain

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