Variant report

Variant	rs3755262
Chromosome Location	chr2:10553877-10553878
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:11)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:11 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr2:10552687..10555850-chr2:10585657..10589524,6	K562	blood:
2	chr2:10553085..10555070-chr2:10555415..10558932,3	MCF-7	breast:
3	chr2:10551885..10553881-chr2:10561679..10563656,2	K562	blood:
4	chr2:10548741..10551044-chr2:10552688..10554394,2	K562	blood:
5	chr2:10426763..10428609-chr2:10553195..10555162,2	MCF-7	breast:
6	chr2:10265350..10267380-chr2:10553704..10556692,2	K562	blood:
7	chr2:10548229..10551901-chr2:10552572..10557970,6	K562	blood:
8	chr2:10483117..10484704-chr2:10552041..10554561,2	K562	blood:
9	chr2:10259957..10264310-chr2:10552122..10556376,5	MCF-7	breast:
10	chr2:10276192..10278788-chr2:10550662..10554322,4	K562	blood:
11	chr2:10552751..10557401-chr2:10586002..10589007,6	K562	blood:

No data

Variant related genes	Relation type
ENSG00000171848	Chromatin interaction
ENSG00000115758	Chromatin interaction
ENSG00000272524	Chromatin interaction
ENSG00000206633	Chromatin interaction
ENSG00000257135	Chromatin interaction

Extended variants
information (count: 37 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs11694643	0.87[AMR][1000 genomes];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13383055	1.00[CHB][hapmap];0.95[ASN][1000 genomes]
rs13383253	1.00[CHB][hapmap];0.81[JPT][hapmap];0.95[ASN][1000 genomes]
rs17434886	0.88[CHB][hapmap];0.90[JPT][hapmap];0.90[ASN][1000 genomes]
rs2270303	0.88[CHB][hapmap];0.90[JPT][hapmap];0.90[ASN][1000 genomes]
rs3755261	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3771120	0.88[CHB][hapmap]
rs3771123	1.00[ASN][1000 genomes]
rs3771126	1.00[CHB][hapmap];0.94[CHD][hapmap];0.91[GIH][hapmap];1.00[JPT][hapmap];0.91[MEX][hapmap];0.82[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs3771135	0.88[ASN][1000 genomes]
rs3771144	0.90[ASN][1000 genomes]
rs3771145	0.88[CHB][hapmap];0.82[CHD][hapmap];0.81[JPT][hapmap];0.90[ASN][1000 genomes]
rs3771146	0.88[ASN][1000 genomes]
rs3821197	0.88[CHB][hapmap]
rs3821200	1.00[CHB][hapmap];0.94[CHD][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs55961729	0.95[ASN][1000 genomes]
rs56156675	0.95[ASN][1000 genomes]
rs56382508	0.95[ASN][1000 genomes]
rs62128251	0.90[ASN][1000 genomes]
rs62128252	0.90[ASN][1000 genomes]
rs62128254	0.90[ASN][1000 genomes]
rs62130179	0.90[ASN][1000 genomes]
rs62130183	0.90[ASN][1000 genomes]
rs62130187	0.93[ASN][1000 genomes]
rs62130191	0.95[ASN][1000 genomes]
rs7579181	1.00[CHB][hapmap];0.90[JPT][hapmap];0.82[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7599203	0.90[ASN][1000 genomes]
rs7603265	0.95[ASN][1000 genomes]
rs7603352	1.00[CHB][hapmap];0.89[JPT][hapmap];0.95[ASN][1000 genomes]
rs7608670	0.86[CHB][hapmap]
rs9917369	0.88[CHB][hapmap]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv530829	chr2:10357105-10655131	Weak transcription Enhancers Bivalent Enhancer Flanking Active TSS Strong transcription ZNF genes & repeats Genic enhancers Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	57 gene(s)	inside rSNPs	diseases
2	nsv873643	chr2:10535481-10583160	Weak transcription Strong transcription Flanking Active TSS Enhancers Genic enhancers Bivalent Enhancer ZNF genes & repeats Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
3	nsv873644	chr2:10537347-10576424	Weak transcription Enhancers ZNF genes & repeats Bivalent Enhancer Flanking Active TSS Genic enhancers Strong transcription Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
4	nsv873645	chr2:10537347-10612091	Active TSS Weak transcription Enhancers Flanking Bivalent TSS/Enh Strong transcription Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	49 gene(s)	inside rSNPs	diseases
5	nsv1007185	chr2:10540386-10791743	Weak transcription Genic enhancers Enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	52 gene(s)	inside rSNPs	diseases
6	nsv873646	chr2:10550517-10612091	Weak transcription Enhancers Bivalent Enhancer Bivalent/Poised TSS Active TSS Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	47 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:102 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:10549000-10570400	Weak transcription	Psoas Muscle	Psoas
2	chr2:10549400-10554000	Weak transcription	Right Atrium	heart
3	chr2:10549400-10554000	Weak transcription	NHDF-Ad	bronchial
4	chr2:10549400-10554200	Weak transcription	Aorta	Aorta
5	chr2:10549400-10555000	Weak transcription	Placenta Amnion	Placenta Amnion
6	chr2:10549400-10562200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
7	chr2:10549400-10563400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
8	chr2:10549600-10554000	Weak transcription	Left Ventricle	heart
9	chr2:10549600-10554200	Weak transcription	Brain Angular Gyrus	brain
10	chr2:10549600-10562200	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
11	chr2:10549600-10572400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
12	chr2:10549800-10554000	Weak transcription	Brain Substantia Nigra	brain
13	chr2:10549800-10561200	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
14	chr2:10549800-10562200	Weak transcription	Primary T helper naive cells from peripheral blood	blood
15	chr2:10549800-10562600	Weak transcription	Esophagus	oesophagus
16	chr2:10549800-10563400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
17	chr2:10550000-10554800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
18	chr2:10550200-10571800	Weak transcription	Small Intestine	intestine
19	chr2:10550400-10555200	Strong transcription	Primary T cells from cord blood	blood
20	chr2:10550800-10554800	Enhancers	Colon Smooth Muscle	Colon
21	chr2:10550800-10555200	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
22	chr2:10551000-10554200	Weak transcription	Skeletal Muscle Male	skeletal muscle
23	chr2:10551200-10554400	Weak transcription	Fetal Brain Female	brain
24	chr2:10551200-10574800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
25	chr2:10551400-10554000	Weak transcription	NH-A	brain
26	chr2:10551400-10564400	Weak transcription	Fetal Kidney	kidney
27	chr2:10551600-10554000	Weak transcription	Brain Germinal Matrix	brain
28	chr2:10551600-10554200	Weak transcription	Fetal Lung	lung
29	chr2:10551600-10555400	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
30	chr2:10551600-10557800	Enhancers	Pancreas	Pancrea
31	chr2:10551800-10554200	Bivalent Enhancer	Fetal Muscle Trunk	muscle
32	chr2:10552000-10556400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
33	chr2:10552000-10559600	Weak transcription	Primary T helper cells PMA-I stimulated	--
34	chr2:10552200-10555200	Genic enhancers	NHEK	skin
35	chr2:10552200-10559600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
36	chr2:10552200-10559800	Weak transcription	Ovary	ovary
37	chr2:10552400-10554200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
38	chr2:10552400-10554400	Enhancers	Rectal Smooth Muscle	rectum
39	chr2:10552400-10555400	Enhancers	HMEC	breast
40	chr2:10552400-10558800	Enhancers	Rectal Mucosa Donor 31	rectum
41	chr2:10552600-10554000	Genic enhancers	Duodenum Mucosa	Duodenum
42	chr2:10552600-10554600	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
43	chr2:10552600-10554800	Strong transcription	Spleen	Spleen
44	chr2:10552600-10555400	Enhancers	Breast Myoepithelial Primary Cells	Breast
45	chr2:10552600-10555400	Weak transcription	HepG2	liver
46	chr2:10552600-10555600	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
47	chr2:10552600-10556000	Enhancers	Sigmoid Colon	Sigmoid Colon
48	chr2:10552600-10556400	Strong transcription	Monocytes-CD14+_RO01746	blood
49	chr2:10552600-10556600	Enhancers	Fetal Muscle Leg	muscle
50	chr2:10552800-10554000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived

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