Variant report

Variant	rs225699
Chromosome Location	chr6:142531037-142531038
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 19 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:17)

rs_ID	r²[population]
rs1989181	0.89[JPT][hapmap]
rs225648	0.94[ASW][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];0.98[GIH][hapmap];1.00[JPT][hapmap];0.96[LWK][hapmap];0.90[MKK][hapmap];0.93[TSI][hapmap];1.00[YRI][hapmap];0.89[ASN][1000 genomes]
rs225691	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3811083	0.94[JPT][hapmap];0.83[ASN][1000 genomes]
rs3811088	0.91[GIH][hapmap];0.89[JPT][hapmap];0.80[MEX][hapmap]
rs4896576	0.89[JPT][hapmap]
rs4896580	0.84[JPT][hapmap]
rs6570497	0.89[JPT][hapmap]
rs6902780	0.83[JPT][hapmap]
rs6926279	0.91[GIH][hapmap];0.80[MEX][hapmap]
rs6934439	0.89[JPT][hapmap]
rs6940882	0.94[JPT][hapmap];0.83[ASN][1000 genomes]
rs7742164	0.91[GIH][hapmap];0.89[JPT][hapmap];0.80[MEX][hapmap]
rs7756224	0.89[JPT][hapmap]
rs9373333	0.83[JPT][hapmap]
rs9385985	0.83[JPT][hapmap]
rs9484600	0.94[JPT][hapmap]

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	nsv886732	chr6:142290338-142536049	Flanking Active TSS Weak transcription Bivalent Enhancer Genic enhancers Enhancers Active TSS Strong transcription ZNF genes & repeats 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	20 gene(s)	inside rSNPs	diseases
2	nsv830824	chr6:142361107-142544929	Genic enhancers Strong transcription ZNF genes & repeats Weak transcription Enhancers Active TSS Flanking Active TSS 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	19 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:116 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:142484200-142533800	Weak transcription	Aorta	Aorta
2	chr6:142489000-142543200	Weak transcription	Small Intestine	intestine
3	chr6:142495600-142533600	Weak transcription	Skeletal Muscle Male	skeletal muscle
4	chr6:142496200-142533800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
5	chr6:142496200-142533800	Weak transcription	Gastric	stomach
6	chr6:142496200-142533800	Weak transcription	Pancreas	Pancrea
7	chr6:142496400-142533600	Weak transcription	Colonic Mucosa	Colon
8	chr6:142496600-142533800	Weak transcription	Left Ventricle	heart
9	chr6:142496600-142546800	Weak transcription	NHLF	lung
10	chr6:142507800-142533800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
11	chr6:142510400-142534000	Weak transcription	Placenta Amnion	Placenta Amnion
12	chr6:142510400-142534200	Weak transcription	Brain Cingulate Gyrus	brain
13	chr6:142510800-142534600	Weak transcription	Hela-S3	cervix
14	chr6:142513400-142533600	Weak transcription	Rectal Smooth Muscle	rectum
15	chr6:142515400-142541800	Weak transcription	Psoas Muscle	Psoas
16	chr6:142517200-142535400	Weak transcription	Colon Smooth Muscle	Colon
17	chr6:142517400-142533400	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
18	chr6:142517400-142533800	Weak transcription	H9 Cell Line	embryonic stem cell
19	chr6:142517600-142533200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
20	chr6:142517800-142533000	Weak transcription	NH-A	brain
21	chr6:142517800-142533200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
22	chr6:142517800-142533600	Weak transcription	Right Ventricle	heart
23	chr6:142518000-142533800	Weak transcription	Pancreatic Islets	Pancreatic Islet
24	chr6:142518000-142534400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
25	chr6:142518000-142534400	Weak transcription	Spleen	Spleen
26	chr6:142518200-142533000	Weak transcription	H1 Cell Line	embryonic stem cell
27	chr6:142518800-142533800	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
28	chr6:142519000-142534400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
29	chr6:142519200-142533600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
30	chr6:142519600-142533000	Strong transcription	HUES64 Cell Line	embryonic stem cell
31	chr6:142519600-142533800	Strong transcription	Fetal Thymus	thymus
32	chr6:142519600-142535200	Strong transcription	Primary T helper cells PMA-I stimulated	--
33	chr6:142519600-142541800	Strong transcription	HSMM	muscle
34	chr6:142520200-142533400	Weak transcription	Skeletal Muscle Female	skeletal muscle
35	chr6:142520400-142532200	Weak transcription	HMEC	breast
36	chr6:142520400-142533600	Weak transcription	Brain Anterior Caudate	brain
37	chr6:142521400-142531400	Weak transcription	Osteobl	bone
38	chr6:142521600-142542600	Weak transcription	Primary T killer memory cells from peripheral blood	blood
39	chr6:142522200-142531400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
40	chr6:142523000-142543000	Weak transcription	Stomach Mucosa	stomach
41	chr6:142523200-142534600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
42	chr6:142524400-142533600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
43	chr6:142525200-142531200	Weak transcription	Rectal Mucosa Donor 31	rectum
44	chr6:142525200-142533400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
45	chr6:142525400-142532200	Weak transcription	HUES48 Cell Line	embryonic stem cell
46	chr6:142525400-142533600	Weak transcription	Brain Angular Gyrus	brain
47	chr6:142525800-142533000	Weak transcription	NHDF-Ad	bronchial
48	chr6:142526000-142535800	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Male	--
49	chr6:142526400-142533200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
50	chr6:142526400-142533800	Weak transcription	Esophagus	oesophagus

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