Variant report

Variant	rs237029
Chromosome Location	chr6:149717425-149717426
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 30 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:27)

rs_ID	r²[population]
rs11155639	0.80[EUR][1000 genomes]
rs11155641	0.87[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11155644	0.87[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11964335	0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs13219868	0.94[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1626823	0.91[AMR][1000 genomes];0.91[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1900300	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs237012	0.88[AFR][1000 genomes];0.82[AMR][1000 genomes];0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs237016	0.87[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs237018	0.88[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs237019	0.86[AFR][1000 genomes];0.83[AMR][1000 genomes];0.88[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs237024	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs237025	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs237026	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs237028	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs237034	0.86[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs237035	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs366905	0.83[AFR][1000 genomes];0.82[AMR][1000 genomes];0.82[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs4895787	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6570963	0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6570964	0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6906384	0.94[AMR][1000 genomes];0.89[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6922130	0.96[AMR][1000 genomes];0.91[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6942381	0.93[AMR][1000 genomes];0.90[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7752555	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7753269	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs805026	0.88[AFR][1000 genomes];0.83[AMR][1000 genomes];0.91[EUR][1000 genomes];0.88[ASN][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	nsv1024106	chr6:149622349-149745053	Weak transcription Enhancers Flanking Active TSS Strong transcription Genic enhancers Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
2	nsv522875	chr6:149643709-149762537	Strong transcription Weak transcription Enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Flanking Active TSS Active TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases
3	nsv530444	chr6:149654540-149848997	Enhancers Weak transcription Flanking Active TSS Genic enhancers Strong transcription Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:125 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:149687800-149726400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
2	chr6:149700400-149728400	Weak transcription	Hela-S3	cervix
3	chr6:149700400-149732400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
4	chr6:149700600-149721200	Weak transcription	Brain Inferior Temporal Lobe	brain
5	chr6:149700600-149721200	Weak transcription	Colonic Mucosa	Colon
6	chr6:149700600-149721200	Weak transcription	Right Ventricle	heart
7	chr6:149700600-149730800	Weak transcription	Fetal Brain Male	brain
8	chr6:149700800-149721000	Weak transcription	K562	blood
9	chr6:149700800-149721200	Weak transcription	Aorta	Aorta
10	chr6:149700800-149732800	Weak transcription	Pancreatic Islets	Pancreatic Islet
11	chr6:149701200-149721200	Weak transcription	Brain Cingulate Gyrus	brain
12	chr6:149701400-149717800	Weak transcription	Fetal Kidney	kidney
13	chr6:149701400-149721200	Weak transcription	H1 Cell Line	embryonic stem cell
14	chr6:149701400-149730800	Weak transcription	H9 Cell Line	embryonic stem cell
15	chr6:149701400-149734200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
16	chr6:149701600-149733600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
17	chr6:149702400-149718800	Weak transcription	HUVEC	blood vessel
18	chr6:149702400-149721200	Weak transcription	Fetal Brain Female	brain
19	chr6:149703200-149718400	Weak transcription	Thymus	Thymus
20	chr6:149703200-149719200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
21	chr6:149703200-149720400	Weak transcription	Brain Angular Gyrus	brain
22	chr6:149703200-149721200	Weak transcription	Spleen	Spleen
23	chr6:149703400-149720000	Weak transcription	Adipose Nuclei	Adipose
24	chr6:149703400-149721000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
25	chr6:149703400-149721200	Weak transcription	HSMMtube	muscle
26	chr6:149703400-149730600	Weak transcription	Brain Germinal Matrix	brain
27	chr6:149703600-149730400	Weak transcription	NHLF	lung
28	chr6:149704800-149718600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
29	chr6:149705000-149718600	Weak transcription	Fetal Muscle Trunk	muscle
30	chr6:149705200-149719000	Weak transcription	Fetal Muscle Leg	muscle
31	chr6:149705200-149721200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
32	chr6:149705200-149721200	Weak transcription	Stomach Smooth Muscle	stomach
33	chr6:149705200-149734600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
34	chr6:149705400-149718800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
35	chr6:149705800-149719000	Weak transcription	NH-A	brain
36	chr6:149707400-149721200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
37	chr6:149708000-149720400	Weak transcription	Fetal Lung	lung
38	chr6:149709200-149720800	Weak transcription	Brain Anterior Caudate	brain
39	chr6:149709400-149733000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
40	chr6:149709600-149717600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
41	chr6:149709600-149718200	Weak transcription	Stomach Mucosa	stomach
42	chr6:149709600-149718600	Weak transcription	HUES6 Cell Line	embryonic stem cell
43	chr6:149709600-149718600	Weak transcription	Fetal Intestine Large	intestine
44	chr6:149709600-149718800	Weak transcription	Rectal Mucosa Donor 31	rectum
45	chr6:149709600-149719600	Weak transcription	HMEC	breast
46	chr6:149709600-149721200	Weak transcription	Brain Hippocampus Middle	brain
47	chr6:149709600-149721200	Weak transcription	Gastric	stomach
48	chr6:149709600-149721200	Weak transcription	Left Ventricle	heart
49	chr6:149709600-149721200	Weak transcription	Lung	lung
50	chr6:149709600-149721200	Weak transcription	Ovary	ovary

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