Variant report

Variant	rs178783
Chromosome Location	chr6:142537928-142537929
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 93 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:92)

rs_ID	r²[population]
rs11758623	1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs225601	0.91[ASN][1000 genomes]
rs225602	0.91[ASN][1000 genomes]
rs225604	0.83[CHB][hapmap];1.00[JPT][hapmap];0.84[TSI][hapmap]
rs225605	1.00[CHB][hapmap];0.87[CHD][hapmap];1.00[JPT][hapmap];0.91[TSI][hapmap]
rs225606	1.00[CHB][hapmap];0.87[CHD][hapmap];1.00[JPT][hapmap];0.91[TSI][hapmap];0.91[ASN][1000 genomes]
rs225618	1.00[CHB][hapmap];0.87[CHD][hapmap];1.00[JPT][hapmap];0.91[TSI][hapmap];0.93[ASN][1000 genomes]
rs225620	0.83[CHB][hapmap];1.00[JPT][hapmap];0.84[TSI][hapmap]
rs225622	1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs225623	0.83[CHB][hapmap];1.00[JPT][hapmap]
rs225624	0.83[CHB][hapmap];1.00[JPT][hapmap];0.87[TSI][hapmap]
rs225629	0.83[CHB][hapmap];1.00[JPT][hapmap]
rs225630	1.00[CHB][hapmap];0.83[CHD][hapmap];1.00[JPT][hapmap];0.93[TSI][hapmap];0.93[ASN][1000 genomes]
rs225631	1.00[CHB][hapmap];0.87[CHD][hapmap];1.00[JPT][hapmap];0.93[TSI][hapmap];0.93[ASN][1000 genomes]
rs225632	1.00[CHB][hapmap];0.87[CHD][hapmap];1.00[JPT][hapmap];0.93[TSI][hapmap];0.93[ASN][1000 genomes]
rs225633	1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs225634	1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs225635	1.00[CHB][hapmap];0.87[CHD][hapmap];1.00[JPT][hapmap];0.93[TSI][hapmap];0.93[ASN][1000 genomes]
rs225636	0.93[ASN][1000 genomes]
rs225639	1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs225640	0.93[ASN][1000 genomes]
rs225641	1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs225642	1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs225643	1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs225650	0.97[ASN][1000 genomes]
rs225651	0.97[ASN][1000 genomes]
rs225652	1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs225653	1.00[CHB][hapmap];0.87[CHD][hapmap];1.00[JPT][hapmap];0.93[TSI][hapmap];0.96[ASN][1000 genomes]
rs225654	1.00[CHB][hapmap];0.96[CHD][hapmap];1.00[JPT][hapmap];0.91[TSI][hapmap];0.97[ASN][1000 genomes]
rs225655	0.97[ASN][1000 genomes]
rs225656	0.83[CHB][hapmap];0.80[CHD][hapmap];1.00[JPT][hapmap];0.87[TSI][hapmap];0.83[ASN][1000 genomes]
rs225657	0.83[CHB][hapmap];0.80[CHD][hapmap];1.00[JPT][hapmap];0.87[TSI][hapmap];0.83[ASN][1000 genomes]
rs225658	0.87[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs225659	1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs225660	1.00[CHB][hapmap];0.96[CHD][hapmap];1.00[JPT][hapmap];0.93[TSI][hapmap];0.97[ASN][1000 genomes]
rs225661	0.90[ASN][1000 genomes]
rs225662	1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs225663	1.00[CHB][hapmap];0.96[CHD][hapmap];1.00[JPT][hapmap];0.93[TSI][hapmap];0.97[ASN][1000 genomes]
rs225664	0.97[ASN][1000 genomes]
rs225665	1.00[CHB][hapmap];0.96[CHD][hapmap];1.00[JPT][hapmap];0.89[TSI][hapmap];0.97[ASN][1000 genomes]
rs225666	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs225667	0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs225668	0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs225670	0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs225671	1.00[CEU][hapmap];1.00[CHB][hapmap];0.96[CHD][hapmap];1.00[JPT][hapmap];0.98[TSI][hapmap];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs225672	0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs225673	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs225674	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs225675	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs225676	1.00[CEU][hapmap];1.00[CHB][hapmap];0.87[CHD][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs225677	1.00[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs225678	1.00[CEU][hapmap];0.88[CHB][hapmap];1.00[JPT][hapmap];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs225679	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs225680	0.96[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs225682	0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs225683	0.96[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs225684	1.00[CEU][hapmap];1.00[CHB][hapmap];0.96[CHD][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs225685	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs225686	1.00[CEU][hapmap];1.00[CHB][hapmap];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs225687	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs225688	0.88[CEU][hapmap];0.83[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.96[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs225689	1.00[CEU][hapmap];0.91[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs225690	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs225692	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs225693	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs225695	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs225696	0.82[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs225697	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs225698	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs225700	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs225701	0.89[CHB][hapmap];1.00[JPT][hapmap];0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs225702	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs225704	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs225705	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs225706	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs225707	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs225708	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs225709	0.81[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs225710	0.93[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs225728	0.86[ASN][1000 genomes]
rs4896574	0.90[JPT][hapmap]
rs4896575	0.90[JPT][hapmap]
rs56185739	0.97[ASN][1000 genomes]
rs62430473	0.91[ASN][1000 genomes]
rs62430506	0.88[ASN][1000 genomes]
rs628311	1.00[CHB][hapmap];0.87[CHD][hapmap];1.00[JPT][hapmap];0.93[TSI][hapmap];0.93[ASN][1000 genomes]
rs638804	0.89[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs639658	1.00[CHB][hapmap];0.87[CHD][hapmap];1.00[JPT][hapmap];0.93[TSI][hapmap];0.93[ASN][1000 genomes]
rs7776318	0.81[JPT][hapmap]
rs9321861	0.91[CHB][hapmap];0.81[JPT][hapmap]
rs9389979	0.90[CHB][hapmap];0.81[JPT][hapmap]
rs9389980	0.91[CHB][hapmap];0.81[JPT][hapmap]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	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:114 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:142489000-142543200	Weak transcription	Small Intestine	intestine
2	chr6:142496600-142546800	Weak transcription	NHLF	lung
3	chr6:142515400-142541800	Weak transcription	Psoas Muscle	Psoas
4	chr6:142519600-142541800	Strong transcription	HSMM	muscle
5	chr6:142521600-142542600	Weak transcription	Primary T killer memory cells from peripheral blood	blood
6	chr6:142523000-142543000	Weak transcription	Stomach Mucosa	stomach
7	chr6:142532400-142543000	Weak transcription	Fetal Brain Male	brain
8	chr6:142533200-142543200	Weak transcription	HMEC	breast
9	chr6:142533800-142541600	Weak transcription	K562	blood
10	chr6:142534000-142538000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
11	chr6:142534200-142541600	Weak transcription	Fetal Kidney	kidney
12	chr6:142534800-142538200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
13	chr6:142534800-142539600	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
14	chr6:142534800-142543400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
15	chr6:142535000-142539200	Weak transcription	Brain Angular Gyrus	brain
16	chr6:142535000-142539200	Weak transcription	Brain Anterior Caudate	brain
17	chr6:142535000-142539200	Weak transcription	Brain Hippocampus Middle	brain
18	chr6:142535000-142539200	Weak transcription	Brain Substantia Nigra	brain
19	chr6:142535000-142539400	Weak transcription	Muscle Satellite Cultured Cells	--
20	chr6:142535000-142539600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
21	chr6:142535000-142539600	Weak transcription	HUES48 Cell Line	embryonic stem cell
22	chr6:142535000-142540200	Weak transcription	Colonic Mucosa	Colon
23	chr6:142535000-142540800	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
24	chr6:142535000-142541400	Strong transcription	Primary monocytes fromperipheralblood	blood
25	chr6:142535000-142541600	Weak transcription	H9 Cell Line	embryonic stem cell
26	chr6:142535000-142541600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
27	chr6:142535000-142542000	Weak transcription	Skeletal Muscle Male	skeletal muscle
28	chr6:142535000-142542200	Weak transcription	Lung	lung
29	chr6:142535000-142542600	Weak transcription	Gastric	stomach
30	chr6:142535000-142543200	Weak transcription	NHEK	skin
31	chr6:142535000-142544400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
32	chr6:142535000-142544800	Weak transcription	Pancreatic Islets	Pancreatic Islet
33	chr6:142535000-142545000	Weak transcription	Esophagus	oesophagus
34	chr6:142535000-142545600	Weak transcription	Aorta	Aorta
35	chr6:142535000-142548800	Weak transcription	NH-A	brain
36	chr6:142535200-142538600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
37	chr6:142535200-142539000	Weak transcription	HUES64 Cell Line	embryonic stem cell
38	chr6:142535200-142539200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
39	chr6:142535200-142539200	Weak transcription	Primary hematopoietic stem cells short term culture	blood
40	chr6:142535200-142539200	Weak transcription	Cortex derived primary cultured neurospheres	brain
41	chr6:142535200-142539200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
42	chr6:142535200-142539200	Weak transcription	Fetal Lung	lung
43	chr6:142535200-142539200	Weak transcription	Rectal Mucosa Donor 31	rectum
44	chr6:142535200-142539400	Weak transcription	Placenta	Placenta
45	chr6:142535200-142539600	Weak transcription	HUES6 Cell Line	embryonic stem cell
46	chr6:142535200-142539600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
47	chr6:142535200-142539600	Weak transcription	Primary neutrophils fromperipheralblood	blood
48	chr6:142535200-142539600	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
49	chr6:142535200-142539600	Weak transcription	Dnd41	blood
50	chr6:142535200-142539800	Weak transcription	NHDF-Ad	bronchial

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