Variant report

Variant	rs11592199
Chromosome Location	chr10:22980658-22980659
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr10:22979232..22981528-chr10:23001469..23003745,3	MCF-7	breast:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-C10orf115-3	chr10:22980551-22980759	NONHSAT011756

Variant related genes	Relation type
ENSG00000150867	Chromatin interaction

Extended variants
information (count: 59 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:57)

rs_ID	r²[population]
rs10159697	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs10159847	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs10218845	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs10508650	1.00[JPT][hapmap]
rs10508651	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs10828320	1.00[JPT][hapmap]
rs11013095	0.81[MEX][hapmap]
rs11013098	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11013103	1.00[CHB][hapmap];0.83[CHD][hapmap];1.00[JPT][hapmap]
rs11013105	1.00[CHB][hapmap];0.83[CHD][hapmap];1.00[JPT][hapmap]
rs11013106	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs11013113	0.89[ASN][1000 genomes]
rs11596218	0.83[ASN][1000 genomes]
rs11597784	0.94[EUR][1000 genomes]
rs12098721	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs12249907	0.90[EUR][1000 genomes]
rs12255136	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12257665	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[TSI][hapmap];0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12266181	0.86[AMR][1000 genomes];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12778869	0.83[ASN][1000 genomes]
rs1624192	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs1631873	1.00[CHB][hapmap];0.83[CHD][hapmap];1.00[JPT][hapmap]
rs16922530	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs16922539	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs16922560	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs16922564	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs16922578	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs16922580	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs16922586	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs17525760	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs17526135	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs1778302	1.00[JPT][hapmap]
rs1778317	1.00[CHB][hapmap];0.83[CHD][hapmap];1.00[JPT][hapmap]
rs1778327	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs34032638	0.80[ASN][1000 genomes]
rs34303686	0.83[ASN][1000 genomes]
rs34729599	0.91[AFR][1000 genomes];0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35027263	0.89[ASN][1000 genomes]
rs35360085	0.84[EUR][1000 genomes]
rs58647212	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6482227	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs6482228	0.81[CEU][hapmap];1.00[JPT][hapmap];0.80[MEX][hapmap];0.93[TSI][hapmap];0.85[EUR][1000 genomes]
rs7071198	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs7075433	1.00[JPT][hapmap]
rs7075499	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs7079078	0.92[CEU][hapmap];0.94[EUR][1000 genomes]
rs7084115	0.92[CEU][hapmap];0.82[TSI][hapmap];0.90[EUR][1000 genomes]
rs7090286	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs7100360	0.95[EUR][1000 genomes]
rs7100490	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs71491932	0.89[ASN][1000 genomes]
rs7900517	1.00[JPT][hapmap]
rs7902016	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs7919243	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs7923171	0.89[ASN][1000 genomes]
rs7924019	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs997650	1.00[CHB][hapmap];1.00[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv1830947	chr10:22881196-23004381	Weak transcription Flanking Active TSS Enhancers Genic enhancers Strong transcription Active TSS Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
2	nsv831809	chr10:22918101-23069676	Weak transcription Enhancers Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Active TSS Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	7 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	chr10:22970600-22989000	Weak transcription	Esophagus	oesophagus
2	chr10:22972600-22983600	Enhancers	Brain Substantia Nigra	brain
3	chr10:22972600-23000200	Enhancers	Primary T killer naive cells fromperipheralblood	blood
4	chr10:22972800-22990000	Weak transcription	Rectal Mucosa Donor 29	rectum
5	chr10:22972800-22999400	Enhancers	Primary T helper cells fromperipheralblood	blood
6	chr10:22973000-22988200	Weak transcription	Aorta	Aorta
7	chr10:22973000-22990000	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
8	chr10:22973000-22997600	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
9	chr10:22973000-22999200	Enhancers	Primary T helper naive cells from peripheral blood	blood
10	chr10:22973200-22981600	Enhancers	Primary T cells effector/memory enriched fromperipheralblood	blood
11	chr10:22973200-22987400	Enhancers	Primary T helper naive cells fromperipheralblood	blood
12	chr10:22973200-22989400	Enhancers	Primary T killer memory cells from peripheral blood	blood
13	chr10:22973800-22985800	Weak transcription	Fetal Heart	heart
14	chr10:22974000-22985400	Weak transcription	Colon Smooth Muscle	Colon
15	chr10:22974600-22982600	Weak transcription	Duodenum Smooth Muscle	Duodenum
16	chr10:22974800-22981000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
17	chr10:22974800-22981200	Weak transcription	Right Atrium	heart
18	chr10:22974800-22988200	Weak transcription	Duodenum Mucosa	Duodenum
19	chr10:22974800-22988400	Weak transcription	Rectal Mucosa Donor 31	rectum
20	chr10:22975000-22982600	Weak transcription	Gastric	stomach
21	chr10:22975600-23001200	Weak transcription	Colonic Mucosa	Colon
22	chr10:22976000-22984000	Enhancers	Primary T regulatory cells fromperipheralblood	blood
23	chr10:22976000-22984400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
24	chr10:22976000-22989000	Weak transcription	Thymus	Thymus
25	chr10:22977200-22998400	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
26	chr10:22977600-22999200	Weak transcription	Dnd41	blood
27	chr10:22977800-22981000	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
28	chr10:22978200-22980800	Enhancers	iPS-18 Cell Line	embryonic stem cell
29	chr10:22978200-22988200	Weak transcription	Left Ventricle	heart
30	chr10:22978400-22981000	Enhancers	iPS-15b Cell Line	embryonic stem cell
31	chr10:22978600-22983000	Enhancers	Fetal Adrenal Gland	Adrenal Gland
32	chr10:22978600-22983400	Enhancers	Primary monocytes fromperipheralblood	blood
33	chr10:22978800-22981200	Weak transcription	H1 Cell Line	embryonic stem cell
34	chr10:22978800-22981600	Enhancers	Primary T cells from cord blood	blood
35	chr10:22978800-22982400	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
36	chr10:22979400-22980800	Enhancers	HepG2	liver
37	chr10:22979400-22983400	Enhancers	Brain Angular Gyrus	brain
38	chr10:22979400-22984800	Enhancers	Brain Hippocampus Middle	brain
39	chr10:22979600-22980800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
40	chr10:22979600-22980800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
41	chr10:22979600-22981000	Enhancers	GM12878-XiMat	blood
42	chr10:22979800-22980800	Enhancers	Primary hematopoietic stem cells short term culture	blood
43	chr10:22979800-22980800	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
44	chr10:22979800-22983200	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
45	chr10:22979800-22983400	Enhancers	Primary T cells fromperipheralblood	blood
46	chr10:22979800-22983600	Enhancers	Primary B cells from peripheral blood	blood
47	chr10:22980000-22980800	Enhancers	ES-I3 Cell Line	embryonic stem cell
48	chr10:22980000-22980800	Enhancers	Small Intestine	intestine
49	chr10:22980200-22980800	Enhancers	HUES64 Cell Line	embryonic stem cell
50	chr10:22980200-22981200	Weak transcription	K562	blood

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