Variant report

Variant	rs1926185
Chromosome Location	chr10:90642542-90642543
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr10:90642477..90643245-chr8:124070790..124071448,2	MCF-7	breast:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-LIPM-1	chr10:90642219-90642614	NONHSAT015481

Extended variants
information (count: 33 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:29)

rs_ID	r²[population]
rs11202877	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11202878	0.97[AFR][1000 genomes];0.85[AMR][1000 genomes]
rs11202880	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[AFR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11202881	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12245525	0.81[AFR][1000 genomes]
rs12245668	0.81[AFR][1000 genomes]
rs12248501	0.99[AFR][1000 genomes];0.85[AMR][1000 genomes]
rs12254451	0.81[AFR][1000 genomes]
rs12262249	0.85[AFR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12263461	0.81[AFR][1000 genomes]
rs12264141	0.85[AFR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12269097	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[AFR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs17113606	1.00[CEU][hapmap];0.93[EUR][1000 genomes]
rs1887025	0.93[EUR][1000 genomes]
rs1926184	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1926186	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55885377	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs57063754	0.85[AFR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs57261011	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7075596	1.00[CEU][hapmap]
rs7076879	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.82[AFR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7077019	0.81[AFR][1000 genomes]
rs7090604	0.81[AFR][1000 genomes]
rs74147302	0.90[ASN][1000 genomes]
rs74150105	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs755049	1.00[CEU][hapmap]
rs7910708	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.84[AFR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7913997	0.81[AFR][1000 genomes]
rs952323	0.82[AFR][1000 genomes];0.81[EUR][1000 genomes];0.99[ASN][1000 genomes]

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	nsv529324	chr10:90198865-90738588	Enhancers Bivalent Enhancer Weak transcription Flanking Active TSS Active TSS Strong transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	40 gene(s)	inside rSNPs	diseases
2	nsv1042848	chr10:90466032-91318474	Weak transcription Enhancers Flanking Active TSS Active TSS Bivalent/Poised TSS Bivalent Enhancer Strong transcription Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	66 gene(s)	inside rSNPs	diseases
3	nsv540741	chr10:90466032-91318474	Enhancers Flanking Active TSS Weak transcription Genic enhancers Bivalent Enhancer ZNF genes & repeats Strong transcription Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	66 gene(s)	inside rSNPs	diseases
4	nsv831942	chr10:90564697-90730352	Flanking Active TSS Genic enhancers Weak transcription Enhancers Strong transcription Bivalent/Poised TSS Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	26 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:83 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:90639600-90643000	Active TSS	A549	lung
2	chr10:90639800-90643200	Active TSS	IMR90 fetal lung fibroblasts Cell Line	lung
3	chr10:90639800-90643200	Active TSS	GM12878-XiMat	blood
4	chr10:90640600-90642600	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
5	chr10:90641000-90642600	Flanking Active TSS	NH-A	brain
6	chr10:90641000-90645400	Enhancers	Small Intestine	intestine
7	chr10:90641000-90646400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
8	chr10:90641000-90647200	Weak transcription	Spleen	Spleen
9	chr10:90641000-90653600	Weak transcription	Gastric	stomach
10	chr10:90641200-90642600	Flanking Active TSS	Duodenum Mucosa	Duodenum
11	chr10:90641200-90642800	Enhancers	Primary neutrophils fromperipheralblood	blood
12	chr10:90641200-90643400	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
13	chr10:90641400-90642600	Enhancers	Primary hematopoietic stem cells	blood
14	chr10:90641400-90642800	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
15	chr10:90641400-90643200	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
16	chr10:90641400-90644800	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
17	chr10:90641400-90645200	Enhancers	Primary T killer naive cells fromperipheralblood	blood
18	chr10:90641400-90646400	Weak transcription	H1 Cell Line	embryonic stem cell
19	chr10:90641400-90658600	Weak transcription	Brain Angular Gyrus	brain
20	chr10:90641600-90642600	Flanking Active TSS	Hela-S3	cervix
21	chr10:90641600-90643800	Enhancers	Pancreatic Islets	Pancreatic Islet
22	chr10:90641600-90645800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
23	chr10:90641600-90646600	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
24	chr10:90641600-90653200	Weak transcription	Colonic Mucosa	Colon
25	chr10:90641800-90642600	Weak transcription	Sigmoid Colon	Sigmoid Colon
26	chr10:90641800-90642600	Transcr. at gene 5' and 3'	Dnd41	blood
27	chr10:90641800-90642600	Enhancers	HSMMtube	muscle
28	chr10:90641800-90643000	Enhancers	Primary T cells fromperipheralblood	blood
29	chr10:90641800-90646400	Weak transcription	Colon Smooth Muscle	Colon
30	chr10:90641800-90647400	Weak transcription	Ovary	ovary
31	chr10:90641800-90653800	Weak transcription	Stomach Mucosa	stomach
32	chr10:90641800-90656400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
33	chr10:90641800-90661800	Weak transcription	Thymus	Thymus
34	chr10:90642000-90642600	Enhancers	HUES48 Cell Line	embryonic stem cell
35	chr10:90642000-90642600	Enhancers	Primary B cells from cord blood	blood
36	chr10:90642000-90646600	Weak transcription	Skeletal Muscle Male	skeletal muscle
37	chr10:90642000-90648800	Enhancers	Primary B cells from peripheral blood	blood
38	chr10:90642000-90650400	Enhancers	Primary T helper naive cells fromperipheralblood	blood
39	chr10:90642000-90651000	Enhancers	Primary T helper naive cells from peripheral blood	blood
40	chr10:90642000-90684800	Weak transcription	Brain Inferior Temporal Lobe	brain
41	chr10:90642000-90686400	Weak transcription	Brain Cingulate Gyrus	brain
42	chr10:90642200-90642600	Enhancers	Fetal Intestine Small	intestine
43	chr10:90642200-90642600	Weak transcription	Psoas Muscle	Psoas
44	chr10:90642200-90642600	Active TSS	Rectal Mucosa Donor 29	rectum
45	chr10:90642200-90642600	Enhancers	Monocytes-CD14+_RO01746	blood
46	chr10:90642200-90644200	Enhancers	Fetal Adrenal Gland	Adrenal Gland
47	chr10:90642200-90648000	Weak transcription	Fetal Muscle Leg	muscle
48	chr10:90642200-90648400	Enhancers	Primary T cells from cord blood	blood
49	chr10:90642200-90648800	Enhancers	Primary T helper cells fromperipheralblood	blood
50	chr10:90642200-90649800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin

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