Variant report

Variant	rs3798910
Chromosome Location	chr6:161464969-161464970
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:161462428..161466451-chr6:161468081..161472167,5	K562	blood:
2	chr6:161462648..161465458-chr6:161468679..161470862,2	K562	blood:
3	chr6:161457923..161460607-chr6:161464113..161468101,4	K562	blood:
4	chr6:161457923..161459864-chr6:161464113..161466599,2	K562	blood:

Extended variants
information (count: 39 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:35)

rs_ID	r²[population]
rs12110787	0.88[CHB][hapmap]
rs12174748	0.93[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12665456	1.00[CEU][hapmap];0.93[EUR][1000 genomes]
rs13200744	1.00[CEU][hapmap];0.83[CHB][hapmap];0.87[JPT][hapmap];0.93[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs13206391	0.93[EUR][1000 genomes]
rs13209847	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs1980328	0.84[ASN][1000 genomes]
rs35894036	0.84[EUR][1000 genomes]
rs3736569	1.00[CEU][hapmap];0.90[EUR][1000 genomes]
rs3778219	1.00[CEU][hapmap];0.82[CHB][hapmap];1.00[YRI][hapmap];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs3798907	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs3798912	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs3798913	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4709488	0.94[CHB][hapmap]
rs588284	0.93[EUR][1000 genomes]
rs589238	1.00[CEU][hapmap];0.93[EUR][1000 genomes]
rs590988	1.00[CEU][hapmap];0.87[EUR][1000 genomes]
rs619831	0.93[EUR][1000 genomes]
rs628075	1.00[CEU][hapmap];1.00[YRI][hapmap];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs630430	0.93[EUR][1000 genomes]
rs643706	1.00[CEU][hapmap];1.00[YRI][hapmap];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs655382	0.87[EUR][1000 genomes]
rs657616	1.00[CEU][hapmap];1.00[YRI][hapmap];1.00[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs685939	0.93[EUR][1000 genomes]
rs686392	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs686755	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs71565787	1.00[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs71565788	1.00[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs787784	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs9295138	0.93[CHB][hapmap]
rs9355861	1.00[CEU][hapmap];1.00[YRI][hapmap];0.81[EUR][1000 genomes]
rs9364587	1.00[CEU][hapmap];1.00[YRI][hapmap];0.93[EUR][1000 genomes]
rs9365249	1.00[CEU][hapmap];1.00[YRI][hapmap];0.93[EUR][1000 genomes]
rs9365251	0.93[EUR][1000 genomes]
rs9458114	0.82[CHB][hapmap]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1030045	chr6:161359075-161562255	Enhancers Strong transcription Weak transcription Bivalent Enhancer Active TSS Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	6 gene(s)	inside rSNPs	diseases
2	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
3	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
4	nsv1023982	chr6:161382188-161549831	Enhancers Active TSS ZNF genes & repeats Weak transcription Strong transcription Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:120 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:161414400-161469600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
2	chr6:161416600-161475200	Weak transcription	Primary T killer memory cells from peripheral blood	blood
3	chr6:161435000-161490400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
4	chr6:161443800-161465600	Weak transcription	Right Atrium	heart
5	chr6:161443800-161478600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
6	chr6:161448800-161472400	Weak transcription	A549	lung
7	chr6:161449000-161494400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
8	chr6:161452800-161489400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
9	chr6:161453600-161470400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
10	chr6:161453600-161506600	Weak transcription	Small Intestine	intestine
11	chr6:161454800-161466000	Strong transcription	Dnd41	blood
12	chr6:161455000-161466000	Strong transcription	Primary T helper cells fromperipheralblood	blood
13	chr6:161455200-161467200	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
14	chr6:161455200-161495800	Weak transcription	Fetal Brain Male	brain
15	chr6:161455400-161466200	Strong transcription	Primary T cells from cord blood	blood
16	chr6:161455600-161466400	Strong transcription	K562	blood
17	chr6:161456200-161466000	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
18	chr6:161456400-161501600	Weak transcription	H1 Cell Line	embryonic stem cell
19	chr6:161456600-161465800	Strong transcription	Primary B cells from peripheral blood	blood
20	chr6:161456600-161469800	Weak transcription	H9 Cell Line	embryonic stem cell
21	chr6:161456800-161477000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
22	chr6:161456800-161485800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
23	chr6:161458000-161466000	Strong transcription	HepG2	liver
24	chr6:161458200-161465800	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
25	chr6:161458200-161471800	Weak transcription	Colonic Mucosa	Colon
26	chr6:161459400-161472000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
27	chr6:161459400-161488800	Weak transcription	Brain Angular Gyrus	brain
28	chr6:161459400-161508800	Weak transcription	Hela-S3	cervix
29	chr6:161459800-161470400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
30	chr6:161459800-161496600	Weak transcription	Fetal Kidney	kidney
31	chr6:161459800-161502800	Weak transcription	HUVEC	blood vessel
32	chr6:161460000-161465800	Weak transcription	Brain Anterior Caudate	brain
33	chr6:161460000-161469800	Weak transcription	Fetal Lung	lung
34	chr6:161460000-161499200	Weak transcription	Brain Cingulate Gyrus	brain
35	chr6:161460200-161470000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
36	chr6:161460200-161470200	Weak transcription	Skeletal Muscle Female	skeletal muscle
37	chr6:161460200-161471400	Weak transcription	Rectal Smooth Muscle	rectum
38	chr6:161460200-161473000	Weak transcription	Right Ventricle	heart
39	chr6:161460400-161465200	Weak transcription	NHEK	skin
40	chr6:161460400-161468800	Weak transcription	NHDF-Ad	bronchial
41	chr6:161460400-161469600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
42	chr6:161460400-161487200	Weak transcription	Colon Smooth Muscle	Colon
43	chr6:161460400-161488800	Weak transcription	Fetal Heart	heart
44	chr6:161460600-161465400	Weak transcription	GM12878-XiMat	blood
45	chr6:161460600-161495600	Weak transcription	HSMMtube	muscle
46	chr6:161460800-161465400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
47	chr6:161460800-161465400	Weak transcription	NH-A	brain
48	chr6:161460800-161466000	Strong transcription	Duodenum Mucosa	Duodenum
49	chr6:161461000-161465800	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
50	chr6:161461600-161465400	Strong transcription	Breast Myoepithelial Primary Cells	Breast

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