Variant report

Variant	rs6942381
Chromosome Location	chr6:149662991-149662992
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

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

rSNPs within LD-proxies of this variant (count:36)

rs_ID	r²[population]
rs11155639	0.92[CHB][hapmap];0.81[JPT][hapmap]
rs11155641	0.92[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11155644	0.85[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11964335	0.86[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13219868	0.83[CEU][hapmap];1.00[JPT][hapmap];0.96[AMR][1000 genomes];0.90[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1446556	0.92[CHB][hapmap]
rs1626823	0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1900300	1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs237003	0.81[EUR][1000 genomes]
rs237009	0.82[EUR][1000 genomes]
rs237010	0.96[CEU][hapmap];0.82[EUR][1000 genomes]
rs237012	0.82[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs237016	0.82[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs237018	0.80[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs237019	0.82[CHB][hapmap];0.82[JPT][hapmap];0.85[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs237024	0.84[CHB][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.90[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs237025	0.82[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];0.90[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs237026	0.82[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.90[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs237028	0.82[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];0.89[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs237029	0.93[AMR][1000 genomes];0.90[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs237034	0.81[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs237035	0.82[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];0.90[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs366905	0.88[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs372205	0.96[CEU][hapmap]
rs409099	0.80[EUR][1000 genomes]
rs420430	0.86[CEU][hapmap]
rs444784	0.80[CEU][hapmap]
rs448420	0.86[CEU][hapmap]
rs4895787	0.82[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[AMR][1000 genomes];0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6570963	0.82[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6570964	0.83[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6906384	0.84[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6922130	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7752555	0.96[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7753269	0.93[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs805026	0.83[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[EUR][1000 genomes];0.86[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:111 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:149641200-149681400	Weak transcription	Fetal Stomach	stomach
2	chr6:149645000-149666400	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
3	chr6:149649400-149689400	Weak transcription	Fetal Brain Female	brain
4	chr6:149654000-149674200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
5	chr6:149654600-149668600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
6	chr6:149656200-149670800	Weak transcription	Esophagus	oesophagus
7	chr6:149656800-149681400	Weak transcription	Psoas Muscle	Psoas
8	chr6:149656800-149682400	Weak transcription	Lung	lung
9	chr6:149656800-149694400	Weak transcription	Placenta	Placenta
10	chr6:149657400-149663600	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
11	chr6:149657400-149665800	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
12	chr6:149657600-149663200	Weak transcription	Brain Inferior Temporal Lobe	brain
13	chr6:149657800-149673800	Weak transcription	Thymus	Thymus
14	chr6:149657800-149683800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
15	chr6:149657800-149691200	Weak transcription	Rectal Mucosa Donor 29	rectum
16	chr6:149658000-149663200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
17	chr6:149658000-149663200	Weak transcription	Duodenum Mucosa	Duodenum
18	chr6:149658000-149663400	Weak transcription	Small Intestine	intestine
19	chr6:149658000-149663800	Weak transcription	Aorta	Aorta
20	chr6:149658000-149663800	Weak transcription	Right Ventricle	heart
21	chr6:149658000-149673800	Weak transcription	Fetal Intestine Large	intestine
22	chr6:149658000-149673800	Weak transcription	Rectal Mucosa Donor 31	rectum
23	chr6:149658000-149674000	Weak transcription	H1 Cell Line	embryonic stem cell
24	chr6:149658000-149679000	Weak transcription	K562	blood
25	chr6:149658000-149680800	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
26	chr6:149658000-149681400	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
27	chr6:149658000-149695400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
28	chr6:149658200-149664800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
29	chr6:149658200-149691000	Weak transcription	NHDF-Ad	bronchial
30	chr6:149658600-149664400	Weak transcription	Right Atrium	heart
31	chr6:149658800-149663600	Weak transcription	NHEK	skin
32	chr6:149658800-149666400	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
33	chr6:149658800-149674000	Weak transcription	HepG2	liver
34	chr6:149658800-149692400	Weak transcription	Fetal Kidney	kidney
35	chr6:149659000-149664800	Weak transcription	HUVEC	blood vessel
36	chr6:149659200-149663400	Weak transcription	Dnd41	blood
37	chr6:149659200-149663600	Weak transcription	HMEC	breast
38	chr6:149659200-149685200	Weak transcription	Ovary	ovary
39	chr6:149659200-149691400	Weak transcription	Fetal Muscle Trunk	muscle
40	chr6:149659400-149663800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
41	chr6:149659400-149679000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
42	chr6:149659600-149663400	Enhancers	Primary T helper cells PMA-I stimulated	--
43	chr6:149659600-149663600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
44	chr6:149659600-149679200	Weak transcription	NH-A	brain
45	chr6:149659600-149684200	Weak transcription	iPS-20b Cell Line	embryonic stem cell
46	chr6:149660000-149664000	Enhancers	Primary T regulatory cells fromperipheralblood	blood
47	chr6:149660000-149664200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
48	chr6:149660200-149667000	Weak transcription	Stomach Mucosa	stomach
49	chr6:149660200-149669600	Weak transcription	Brain Angular Gyrus	brain
50	chr6:149660400-149663800	Weak transcription	Sigmoid Colon	Sigmoid Colon

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