Variant report

Variant	rs10456096
Chromosome Location	chr6:37789321-37789322
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:37788598..37791926-chr6:37799655..37801709,3	K562	blood:
2	chr6:37788588..37790791-chr6:37827723..37829422,2	MCF-7	breast:
3	chr6:37788608..37792008-chr6:37826692..37829268,3	K562	blood:
4	chr6:37787991..37789516-chr6:37789518..37791025,2	MCF-7	breast:
5	chr3:64084830..64086992-chr6:37787357..37789363,2	MCF-7	breast:
6	chr6:37785884..37787754-chr6:37789028..37791294,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000241572	Chromatin interaction
ENSG00000225945	Chromatin interaction
ENSG00000156639	Chromatin interaction
ENSG00000243313	Chromatin interaction

Extended variants
information (count: 42 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:39)

rs_ID	r²[population]
rs10485029	0.88[CHB][hapmap]
rs10807188	0.98[EUR][1000 genomes]
rs1187422	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs1187423	0.95[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs12192182	0.83[AFR][1000 genomes];0.87[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs12198907	0.86[EUR][1000 genomes]
rs12200258	0.89[CEU][hapmap];0.88[CHB][hapmap];0.81[EUR][1000 genomes]
rs12206818	0.84[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs12211248	0.88[CHB][hapmap];0.87[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs12211981	0.92[CEU][hapmap];0.88[CHB][hapmap];0.86[YRI][hapmap];0.87[AFR][1000 genomes];0.89[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs12213835	0.92[CEU][hapmap];0.88[CHB][hapmap];0.86[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs13210701	0.93[CEU][hapmap];0.88[CHB][hapmap];0.88[YRI][hapmap];0.82[AFR][1000 genomes];0.87[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs171831	0.82[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs1812599	0.87[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs2395686	0.82[AFR][1000 genomes];0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs259673	0.83[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs259684	0.82[EUR][1000 genomes]
rs259686	0.88[CEU][hapmap];0.88[CHB][hapmap];0.86[YRI][hapmap];0.83[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs259689	0.92[CEU][hapmap];0.88[CHB][hapmap];1.00[YRI][hapmap];0.83[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs259690	0.93[CEU][hapmap];0.88[CHB][hapmap];0.88[YRI][hapmap];0.83[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs259691	0.93[CEU][hapmap];0.88[CHB][hapmap];0.88[YRI][hapmap];0.83[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs259695	0.81[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs259713	0.92[CEU][hapmap];0.88[CHB][hapmap];0.86[YRI][hapmap];0.93[AFR][1000 genomes];0.95[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs259715	0.95[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs259716	0.94[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs2645107	0.89[CEU][hapmap];0.88[CHB][hapmap];0.86[JPT][hapmap]
rs2645116	0.89[CEU][hapmap];0.88[CHB][hapmap];0.93[YRI][hapmap]
rs2842517	0.89[CEU][hapmap];0.88[CHB][hapmap];0.83[AMR][1000 genomes]
rs2842527	0.89[CEU][hapmap];0.88[CHB][hapmap]
rs34871463	0.80[AFR][1000 genomes];0.88[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs35925070	0.81[AFR][1000 genomes]
rs6458027	0.88[AMR][1000 genomes];0.99[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6458028	0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6458029	0.93[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs7755089	0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs9296232	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9394460	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.99[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9647619	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs966705	0.82[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1028825	chr6:37495154-38278320	Enhancers Active TSS Weak transcription Bivalent/Poised TSS Flanking Active TSS Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	19 gene(s)	inside rSNPs	diseases
2	nsv1024016	chr6:37567651-37981590	Weak transcription Enhancers Active TSS Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
3	esv3328154	chr6:37786599-37789347	Enhancers Flanking Active TSS Active TSS Weak transcription Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:127 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:37786000-37789800	Active TSS	Psoas Muscle	Psoas
2	chr6:37786000-37790000	Active TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
3	chr6:37788000-37789400	Flanking Active TSS	Primary B cells from cord blood	blood
4	chr6:37788200-37789400	Flanking Active TSS	Primary T cells from cord blood	blood
5	chr6:37788200-37789400	Flanking Active TSS	Primary hematopoietic stem cells	blood
6	chr6:37788200-37789400	Flanking Active TSS	Primary hematopoietic stem cells short term culture	blood
7	chr6:37788200-37789400	Flanking Active TSS	Primary T helper cells PMA-I stimulated	--
8	chr6:37788200-37789400	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Female	--
9	chr6:37788200-37789400	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
10	chr6:37788200-37789400	Flanking Active TSS	Adipose Nuclei	Adipose
11	chr6:37788200-37789600	Flanking Active TSS	H9 Derived Neuron Cultured Cells	ES cell derived
12	chr6:37788200-37789600	Flanking Active TSS	Dnd41	blood
13	chr6:37788200-37790200	Flanking Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
14	chr6:37788400-37789400	Flanking Active TSS	Brain Angular Gyrus	brain
15	chr6:37788400-37789400	Flanking Active TSS	Fetal Brain Male	brain
16	chr6:37788400-37789400	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
17	chr6:37788400-37789400	Flanking Active TSS	NHEK	skin
18	chr6:37788400-37789600	Flanking Active TSS	Muscle Satellite Cultured Cells	--
19	chr6:37788400-37789600	Flanking Active TSS	Fetal Brain Female	brain
20	chr6:37788400-37789600	Flanking Active TSS	HMEC	breast
21	chr6:37788400-37789600	Flanking Active TSS	HUVEC	blood vessel
22	chr6:37788400-37789600	Flanking Active TSS	K562	blood
23	chr6:37788400-37791000	Flanking Active TSS	Rectal Mucosa Donor 29	rectum
24	chr6:37788600-37789400	Flanking Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
25	chr6:37788600-37789400	Flanking Active TSS	Foreskin Keratinocyte Primary Cells skin02	Skin
26	chr6:37788600-37789400	Flanking Active TSS	Brain Inferior Temporal Lobe	brain
27	chr6:37788600-37789400	Flanking Active TSS	HepG2	liver
28	chr6:37788600-37789600	Flanking Active TSS	Brain Hippocampus Middle	brain
29	chr6:37788600-37789600	Flanking Active TSS	Duodenum Mucosa	Duodenum
30	chr6:37788600-37789600	Flanking Active TSS	NHDF-Ad	bronchial
31	chr6:37788600-37789600	Flanking Active TSS	Osteobl	bone
32	chr6:37788600-37790400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
33	chr6:37788600-37790400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
34	chr6:37788600-37790600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
35	chr6:37788600-37790600	Flanking Active TSS	Liver	Liver
36	chr6:37788600-37790800	Enhancers	Primary B cells from peripheral blood	blood
37	chr6:37788600-37791400	Enhancers	Placenta Amnion	Placenta Amnion
38	chr6:37788600-37791400	Enhancers	Small Intestine	intestine
39	chr6:37788800-37789400	Flanking Active TSS	A549	lung
40	chr6:37788800-37789400	Transcr. at gene 5' and 3'	Hela-S3	cervix
41	chr6:37788800-37789600	Weak transcription	Esophagus	oesophagus
42	chr6:37788800-37789600	Flanking Active TSS	Pancreatic Islets	Pancreatic Islet
43	chr6:37788800-37789600	Weak transcription	Fetal Muscle Trunk	muscle
44	chr6:37788800-37789600	Flanking Active TSS	Skeletal Muscle Male	skeletal muscle
45	chr6:37788800-37790400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
46	chr6:37788800-37790800	Weak transcription	H9 Cell Line	embryonic stem cell
47	chr6:37788800-37790800	Enhancers	iPS-15b Cell Line	embryonic stem cell
48	chr6:37788800-37790800	Enhancers	Primary monocytes fromperipheralblood	blood
49	chr6:37788800-37791400	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
50	chr6:37788800-37791400	Enhancers	Primary T helper 17 cells PMA-I stimulated	--

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