Variant report

Variant	rs7769144
Chromosome Location	chr6:88325270-88325271
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 58 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:54)

rs_ID	r²[population]
rs16879289	0.91[CEU][hapmap];0.80[CHB][hapmap];0.84[TSI][hapmap]
rs16879559	0.89[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs16879704	1.00[CEU][hapmap];1.00[CHB][hapmap];0.86[JPT][hapmap];0.95[TSI][hapmap];0.84[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs16879736	0.84[TSI][hapmap]
rs2179845	0.80[CHB][hapmap]
rs28381470	0.82[AFR][1000 genomes];0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs28381475	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs28381530	0.84[AMR][1000 genomes];0.85[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs3763177	1.00[CEU][hapmap];1.00[CHB][hapmap];0.86[JPT][hapmap];0.95[TSI][hapmap];0.81[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs41273297	0.93[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4398698	0.93[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs55755139	0.93[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs55909105	0.83[ASN][1000 genomes]
rs55916435	0.83[AMR][1000 genomes]
rs55985738	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56092913	0.91[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs56386021	0.83[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs56400749	0.80[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs57573658	0.91[ASN][1000 genomes]
rs58060521	0.84[EUR][1000 genomes]
rs59774543	0.95[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs60082015	0.93[AMR][1000 genomes];0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs60316099	0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs66464758	0.91[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs66502414	0.84[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs66663658	0.91[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs66833561	0.93[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs66965134	0.84[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs67371470	0.93[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs67700862	0.84[EUR][1000 genomes]
rs67956402	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs67978476	0.91[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs67993159	0.84[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs68082038	0.83[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs68105619	0.91[AMR][1000 genomes]
rs6903344	0.84[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs6906734	1.00[CEU][hapmap];0.90[CHB][hapmap];0.86[JPT][hapmap];0.88[TSI][hapmap]
rs6907107	0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6923655	0.80[EUR][1000 genomes]
rs6924641	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[YRI][hapmap]
rs6932733	0.93[AMR][1000 genomes];0.83[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6933305	0.91[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs715207	0.84[AMR][1000 genomes];0.85[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs72922561	0.91[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs72922577	0.88[AMR][1000 genomes];0.97[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs72924341	0.86[ASN][1000 genomes]
rs72924342	0.84[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs73498106	0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7747792	1.00[CHB][hapmap];0.88[JPT][hapmap];0.84[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7752473	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7753275	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[AMR][1000 genomes]
rs7760237	1.00[CEU][hapmap];1.00[CHB][hapmap];0.88[JPT][hapmap]
rs8802	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[TSI][hapmap]
rs9450684	0.80[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	nsv1031961	chr6:88110401-88367006	Weak transcription Strong transcription Flanking Active TSS Active TSS Enhancers Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	21 gene(s)	inside rSNPs	diseases
2	nsv1031460	chr6:88153079-88410050	Weak transcription Genic enhancers ZNF genes & repeats Flanking Active TSS Enhancers Strong transcription Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases
3	nsv1026482	chr6:88164934-88409728	Weak transcription Strong transcription Active TSS Flanking Active TSS Genic enhancers Enhancers ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	21 gene(s)	inside rSNPs	diseases
4	nsv1027706	chr6:88168987-88409728	Genic enhancers Weak transcription Enhancers Strong transcription Active TSS ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	21 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:123 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:88300600-88391200	Weak transcription	Colonic Mucosa	Colon
2	chr6:88301000-88330200	Weak transcription	Right Ventricle	heart
3	chr6:88301000-88347200	Weak transcription	Small Intestine	intestine
4	chr6:88301200-88385000	Weak transcription	Colon Smooth Muscle	Colon
5	chr6:88301400-88338400	Weak transcription	NHLF	lung
6	chr6:88301400-88354400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
7	chr6:88301400-88354600	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
8	chr6:88302000-88347400	Weak transcription	Brain Cingulate Gyrus	brain
9	chr6:88302000-88354400	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
10	chr6:88302000-88354600	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
11	chr6:88305000-88398800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
12	chr6:88305200-88329000	Weak transcription	HSMMtube	muscle
13	chr6:88308800-88369800	Weak transcription	Fetal Brain Male	brain
14	chr6:88311400-88334600	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
15	chr6:88312200-88371200	Weak transcription	NHEK	skin
16	chr6:88312400-88380600	Weak transcription	Brain Substantia Nigra	brain
17	chr6:88313800-88338200	Weak transcription	NHDF-Ad	bronchial
18	chr6:88314000-88384800	Weak transcription	Hela-S3	cervix
19	chr6:88314200-88399200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
20	chr6:88314600-88385000	Weak transcription	Esophagus	oesophagus
21	chr6:88315200-88327000	Weak transcription	Fetal Heart	heart
22	chr6:88315400-88327000	Strong transcription	iPS-20b Cell Line	embryonic stem cell
23	chr6:88315400-88334600	Strong transcription	HUES48 Cell Line	embryonic stem cell
24	chr6:88315800-88326800	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
25	chr6:88315800-88327000	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
26	chr6:88315800-88327200	Strong transcription	HUES6 Cell Line	embryonic stem cell
27	chr6:88316400-88330600	Weak transcription	Duodenum Smooth Muscle	Duodenum
28	chr6:88316600-88328200	Weak transcription	HUVEC	blood vessel
29	chr6:88316600-88381200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
30	chr6:88316600-88390000	Weak transcription	Pancreas	Pancrea
31	chr6:88316800-88337800	Weak transcription	GM12878-XiMat	blood
32	chr6:88317400-88325400	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
33	chr6:88319000-88333000	Weak transcription	HepG2	liver
34	chr6:88319800-88325400	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
35	chr6:88320000-88325400	Strong transcription	Fetal Stomach	stomach
36	chr6:88320400-88327000	Strong transcription	Fetal Muscle Trunk	muscle
37	chr6:88320400-88400800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
38	chr6:88320600-88325400	Strong transcription	Breast Myoepithelial Primary Cells	Breast
39	chr6:88320600-88325400	Strong transcription	Primary T cells fromperipheralblood	blood
40	chr6:88320600-88325600	Strong transcription	Fetal Muscle Leg	muscle
41	chr6:88320600-88325600	Strong transcription	Rectal Mucosa Donor 29	rectum
42	chr6:88320800-88325400	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
43	chr6:88320800-88325400	Strong transcription	Fetal Thymus	thymus
44	chr6:88320800-88325800	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
45	chr6:88321000-88325400	Strong transcription	Primary T helper cells PMA-I stimulated	--
46	chr6:88321200-88348400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
47	chr6:88321400-88327400	Weak transcription	Spleen	Spleen
48	chr6:88321600-88350000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
49	chr6:88321800-88325400	Strong transcription	Left Ventricle	heart
50	chr6:88321800-88325400	Strong transcription	Lung	lung

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