Variant report

Variant	rs890500
Chromosome Location	chr15:42201702-42201703
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr15:42200541..42203413-chr15:42204605..42206886,2	K562	blood:
2	chr15:42200852..42203519-chr15:42209900..42211491,2	K562	blood:

Extended variants
information (count: 45 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:31)

rs_ID	r²[population]
rs1025227	1.00[YRI][hapmap];0.96[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs1030417	0.93[YRI][hapmap];0.87[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs1197656	1.00[EUR][1000 genomes]
rs1197676	1.00[EUR][1000 genomes]
rs1197678	1.00[EUR][1000 genomes]
rs1197695	1.00[EUR][1000 genomes]
rs1197696	1.00[EUR][1000 genomes]
rs1197698	1.00[EUR][1000 genomes]
rs1201692	1.00[EUR][1000 genomes]
rs12900408	1.00[EUR][1000 genomes]
rs1451047	1.00[EUR][1000 genomes]
rs1530836	1.00[EUR][1000 genomes]
rs1614205	1.00[EUR][1000 genomes]
rs1621597	1.00[YRI][hapmap];0.93[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs1648808	1.00[EUR][1000 genomes]
rs1648812	0.99[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs1648813	0.98[AFR][1000 genomes]
rs1648819	1.00[YRI][hapmap];0.94[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs1648820	1.00[YRI][hapmap];0.96[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs1668566	1.00[EUR][1000 genomes]
rs1668590	1.00[EUR][1000 genomes]
rs1668591	1.00[EUR][1000 genomes]
rs1704408	1.00[EUR][1000 genomes]
rs1704409	1.00[EUR][1000 genomes]
rs2665209	1.00[EUR][1000 genomes]
rs2724932	1.00[EUR][1000 genomes]
rs57032192	1.00[EUR][1000 genomes]
rs6493009	1.00[EUR][1000 genomes]
rs73410628	1.00[EUR][1000 genomes]
rs890497	1.00[EUR][1000 genomes]
rs890499	1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:14 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv931223	chr15:41989960-42781757	Enhancers Weak transcription Strong transcription Flanking Active TSS Genic enhancers Bivalent Enhancer Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	81 gene(s)	inside rSNPs	diseases
2	nsv427958	chr15:42051317-42301283	Strong transcription Weak transcription Enhancers Active TSS Bivalent Enhancer Genic enhancers Flanking Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	45 gene(s)	inside rSNPs	diseases
3	nsv904116	chr15:42076387-42229852	Weak transcription Active TSS Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Genic enhancers Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	25 gene(s)	inside rSNPs	diseases
4	nsv1035998	chr15:42098896-42434254	Weak transcription Enhancers Strong transcription Active TSS Flanking Active TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	38 gene(s)	inside rSNPs	diseases
5	nsv904118	chr15:42103822-42207905	Weak transcription Enhancers Active TSS Flanking Active TSS Strong transcription Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	20 gene(s)	inside rSNPs	diseases
6	nsv904124	chr15:42109975-42207905	Enhancers Strong transcription Weak transcription Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	20 gene(s)	inside rSNPs	diseases
7	nsv9244	chr15:42110712-42208805	Enhancers Genic enhancers Flanking Active TSS Strong transcription Weak transcription Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	21 gene(s)	inside rSNPs	diseases
8	nsv904125	chr15:42119900-42210393	Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS Strong transcription Enhancers Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	19 gene(s)	inside rSNPs	diseases
9	nsv1038933	chr15:42138456-42309087	Weak transcription Enhancers Genic enhancers Strong transcription Bivalent Enhancer Flanking Active TSS Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	30 gene(s)	inside rSNPs	diseases
10	nsv904127	chr15:42142912-42207905	Weak transcription Enhancers Genic enhancers Flanking Active TSS Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	10 gene(s)	inside rSNPs	diseases
11	nsv904128	chr15:42147639-42207905	Flanking Active TSS Weak transcription ZNF genes & repeats Enhancers Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' Active TSS Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	8 gene(s)	inside rSNPs	diseases
12	nsv529687	chr15:42157320-42621682	Weak transcription Strong transcription Enhancers Active TSS Flanking Active TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	59 gene(s)	inside rSNPs	diseases
13	nsv904129	chr15:42162957-42207905	Weak transcription Flanking Bivalent TSS/Enh Enhancers Strong transcription ZNF genes & repeats Genic enhancers Flanking Active TSS Bivalent Enhancer Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
14	nsv1054728	chr15:42177772-42310009	Enhancers Genic enhancers Weak transcription Bivalent Enhancer Strong transcription Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:118 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:42187200-42211800	Weak transcription	Small Intestine	intestine
2	chr15:42187600-42209800	Weak transcription	Colon Smooth Muscle	Colon
3	chr15:42187800-42206800	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
4	chr15:42188600-42209600	Strong transcription	NHEK	skin
5	chr15:42189800-42208400	Strong transcription	HUVEC	blood vessel
6	chr15:42190200-42209800	Weak transcription	Hela-S3	cervix
7	chr15:42190400-42218600	Weak transcription	Fetal Lung	lung
8	chr15:42192600-42204000	Strong transcription	Esophagus	oesophagus
9	chr15:42195800-42209000	Strong transcription	Sigmoid Colon	Sigmoid Colon
10	chr15:42197200-42202600	Strong transcription	Primary T helper 17 cells PMA-I stimulated	--
11	chr15:42197200-42204800	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
12	chr15:42197200-42209800	Weak transcription	A549	lung
13	chr15:42197200-42210400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
14	chr15:42197200-42210800	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
15	chr15:42197200-42218600	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
16	chr15:42197400-42202000	Strong transcription	Placenta Amnion	Placenta Amnion
17	chr15:42197400-42205200	Weak transcription	Brain Angular Gyrus	brain
18	chr15:42197400-42206600	Strong transcription	NHLF	lung
19	chr15:42197400-42206800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
20	chr15:42197400-42208200	Strong transcription	HSMM	muscle
21	chr15:42197400-42209600	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
22	chr15:42197400-42218600	Weak transcription	Primary T killer memory cells from peripheral blood	blood
23	chr15:42197600-42202200	Strong transcription	Duodenum Smooth Muscle	Duodenum
24	chr15:42197600-42202800	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
25	chr15:42197600-42202800	Strong transcription	HSMMtube	muscle
26	chr15:42197600-42204000	Weak transcription	Right Atrium	heart
27	chr15:42197600-42206400	Weak transcription	Psoas Muscle	Psoas
28	chr15:42197800-42202600	Strong transcription	Liver	Liver
29	chr15:42197800-42206800	Strong transcription	Primary T cells from cord blood	blood
30	chr15:42197800-42208200	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
31	chr15:42198000-42202000	Strong transcription	Muscle Satellite Cultured Cells	--
32	chr15:42198000-42202200	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
33	chr15:42198200-42202200	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
34	chr15:42198200-42202600	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
35	chr15:42198200-42206600	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
36	chr15:42198200-42207000	Strong transcription	Rectal Mucosa Donor 29	rectum
37	chr15:42198200-42212000	Strong transcription	HUES48 Cell Line	embryonic stem cell
38	chr15:42198400-42203200	Strong transcription	Fetal Muscle Leg	muscle
39	chr15:42198600-42202000	Strong transcription	iPS-20b Cell Line	embryonic stem cell
40	chr15:42198600-42202200	Strong transcription	ES-I3 Cell Line	embryonic stem cell
41	chr15:42198600-42202200	Strong transcription	H9 Cell Line	embryonic stem cell
42	chr15:42198600-42202200	Strong transcription	Colonic Mucosa	Colon
43	chr15:42198600-42202200	Strong transcription	Stomach Smooth Muscle	stomach
44	chr15:42198600-42202200	Strong transcription	Osteobl	bone
45	chr15:42198600-42202400	Strong transcription	HUES6 Cell Line	embryonic stem cell
46	chr15:42198600-42202400	Strong transcription	iPS-15b Cell Line	embryonic stem cell
47	chr15:42198600-42202600	Strong transcription	Primary T helper cells PMA-I stimulated	--
48	chr15:42198600-42204600	Strong transcription	Primary T helper cells fromperipheralblood	blood
49	chr15:42198800-42202000	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
50	chr15:42198800-42202000	Strong transcription	Rectal Smooth Muscle	rectum

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