Variant report

Variant	rs2725181
Chromosome Location	chr10:50369372-50369373
allele	A/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:14)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:14 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr10:49865954..49866714-chr10:50369332..50370327,2	MCF-7	breast:
2	chr10:50360501..50363437-chr10:50365924..50369669,5	K562	blood:
3	chr10:50349435..50351722-chr10:50368271..50370648,2	K562	blood:
4	chr10:50092244..50093034-chr10:50369173..50370169,2	MCF-7	breast:
5	chr10:50208979..50209840-chr10:50369197..50369909,3	MCF-7	breast:
6	chr10:50272836..50273384-chr10:50369356..50370222,2	MCF-7	breast:
7	chr10:50184525..50185128-chr10:50369265..50369817,2	MCF-7	breast:
8	chr10:50368282..50370394-chr10:50503941..50507857,3	K562	blood:
9	chr10:50364786..50371686-chr10:50371829..50376692,10	K562	blood:
10	chr10:50368282..50369845-chr10:50503941..50506916,2	K562	blood:
11	chr10:50363975..50366522-chr10:50367488..50370689,4	K562	blood:
12	chr10:50340460..50342159-chr10:50369270..50372220,2	K562	blood:
13	chr10:50340659..50342841-chr10:50368235..50370770,2	K562	blood:
14	chr10:50208660..50210019-chr10:50369301..50370268,4	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000177354	Chromatin interaction
ENSG00000172538	Chromatin interaction
ENSG00000204161	Chromatin interaction
ENSG00000236208	Chromatin interaction

Extended variants
information (count: 96 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:94)

rs_ID	r²[population]
rs11100988	0.93[CHB][hapmap]
rs11100989	0.94[CHB][hapmap];1.00[JPT][hapmap];0.84[ASN][1000 genomes]
rs11100990	0.94[CHB][hapmap];0.84[CHD][hapmap];1.00[JPT][hapmap];0.84[ASN][1000 genomes]
rs12240534	0.94[CHB][hapmap];1.00[JPT][hapmap];0.81[ASN][1000 genomes]
rs12244666	0.91[CEU][hapmap]
rs12244748	0.91[CEU][hapmap]
rs12253426	0.91[CEU][hapmap]
rs12255055	1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[ASN][1000 genomes]
rs12255090	0.95[CEU][hapmap]
rs12256777	0.91[CEU][hapmap];0.89[TSI][hapmap]
rs12257242	0.95[CEU][hapmap];0.84[EUR][1000 genomes]
rs12261297	0.95[CEU][hapmap];0.81[EUR][1000 genomes]
rs12267388	0.84[ASN][1000 genomes]
rs12765281	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.86[AFR][1000 genomes];0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12769361	0.95[CEU][hapmap];0.84[EUR][1000 genomes]
rs12774293	0.91[CEU][hapmap]
rs12776460	0.95[CEU][hapmap];0.97[TSI][hapmap];0.84[EUR][1000 genomes]
rs12776553	0.81[ASN][1000 genomes]
rs17011757	0.95[CEU][hapmap];0.89[TSI][hapmap];0.81[EUR][1000 genomes]
rs17700872	0.95[CEU][hapmap];0.84[EUR][1000 genomes]
rs17701186	0.86[AFR][1000 genomes];0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs17773851	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.86[AFR][1000 genomes];0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs17782733	0.94[CHB][hapmap];0.91[JPT][hapmap];0.85[YRI][hapmap];0.81[ASN][1000 genomes]
rs1986725	0.94[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs2003044	1.00[CEU][hapmap];0.94[CHB][hapmap];0.97[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.88[LWK][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2137912	0.91[CEU][hapmap];0.87[TSI][hapmap]
rs2246673	0.91[CEU][hapmap]
rs2264846	0.91[CEU][hapmap]
rs2264847	0.91[CEU][hapmap]
rs2490838	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2725179	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2725184	0.93[AFR][1000 genomes];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2725185	0.96[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2725190	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2725194	1.00[YRI][hapmap];0.86[ASN][1000 genomes]
rs2725200	0.82[CHB][hapmap];0.87[CHD][hapmap]
rs2804928	0.85[ASN][1000 genomes]
rs2804930	0.82[CHB][hapmap];0.84[CHD][hapmap];1.00[JPT][hapmap];0.86[ASN][1000 genomes]
rs2804931	0.94[CHB][hapmap];0.92[CHD][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs2804932	0.86[ASW][hapmap];0.94[CHB][hapmap];0.92[CHD][hapmap];1.00[JPT][hapmap];0.89[YRI][hapmap];0.88[ASN][1000 genomes]
rs2804934	1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs2804937	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2804939	0.94[CHB][hapmap];0.92[CHD][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs2804940	0.95[ASN][1000 genomes]
rs2804941	0.96[ASN][1000 genomes]
rs34056748	0.86[ASN][1000 genomes]
rs34062275	0.84[AFR][1000 genomes];0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs34110351	0.86[AFR][1000 genomes];0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs34289781	0.83[EUR][1000 genomes]
rs34364659	0.84[EUR][1000 genomes]
rs34436721	0.92[ASN][1000 genomes]
rs34467986	0.86[AFR][1000 genomes];0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs34574986	0.84[EUR][1000 genomes]
rs34589684	0.90[ASN][1000 genomes]
rs34640094	0.84[EUR][1000 genomes]
rs34786393	0.86[ASN][1000 genomes]
rs34878380	0.84[EUR][1000 genomes]
rs35007047	0.84[ASN][1000 genomes]
rs35285557	0.81[ASN][1000 genomes]
rs35666409	0.81[ASN][1000 genomes]
rs35922675	0.84[EUR][1000 genomes]
rs4073138	0.91[AFR][1000 genomes];0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4073139	0.91[AFR][1000 genomes];0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4073712	0.92[CHB][hapmap]
rs4298825	0.86[ASW][hapmap]
rs4344406	0.94[CHB][hapmap]
rs4350286	0.94[CHB][hapmap];1.00[JPT][hapmap];0.86[ASN][1000 genomes]
rs4364979	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs4400713	0.91[CEU][hapmap]
rs4402204	0.91[CEU][hapmap]
rs4417190	0.94[CHB][hapmap]
rs4445564	0.95[CEU][hapmap];0.89[TSI][hapmap];0.81[EUR][1000 genomes]
rs4488117	0.86[ASW][hapmap]
rs4495812	0.95[ASN][1000 genomes]
rs4497320	0.83[ASN][1000 genomes]
rs4508127	0.95[CEU][hapmap];0.81[EUR][1000 genomes]
rs4558091	0.94[CHB][hapmap]
rs4600129	0.81[EUR][1000 genomes]
rs4620641	0.94[CHB][hapmap];0.82[CHD][hapmap]
rs4644582	0.82[AMR][1000 genomes];0.93[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs4838446	0.94[CHB][hapmap]
rs4838447	0.82[CHB][hapmap]
rs55947405	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs56291725	0.84[EUR][1000 genomes]
rs58154726	0.83[EUR][1000 genomes]
rs58893558	0.88[AMR][1000 genomes];0.96[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs67269950	0.86[AFR][1000 genomes];0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs68065270	0.83[EUR][1000 genomes]
rs7072243	0.94[CHB][hapmap]
rs7081243	0.86[AFR][1000 genomes];0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7085823	0.91[CEU][hapmap];0.89[TSI][hapmap]
rs7100655	1.00[CEU][hapmap];0.94[CHB][hapmap];0.92[CHD][hapmap];1.00[JPT][hapmap];0.86[LWK][hapmap];0.95[MEX][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes];0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs72785015	0.84[EUR][1000 genomes]
rs9804403	0.91[CEU][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	nsv895375	chr10:50306386-51028871	Weak transcription Active TSS Strong transcription Enhancers Flanking Active TSS Bivalent Enhancer Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	33 gene(s)	inside rSNPs	diseases
2	nsv534410	chr10:50317458-50826916	Weak transcription Bivalent Enhancer Enhancers Active TSS Strong transcription Flanking Active TSS Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	30 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:34 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:50359000-50382200	Weak transcription	Left Ventricle	heart
2	chr10:50359200-50375400	Weak transcription	Right Atrium	heart
3	chr10:50359400-50373400	Weak transcription	Right Ventricle	heart
4	chr10:50359400-50374000	Weak transcription	Skeletal Muscle Male	skeletal muscle
5	chr10:50362200-50370600	Weak transcription	Spleen	Spleen
6	chr10:50362400-50380600	Weak transcription	Brain Cingulate Gyrus	brain
7	chr10:50365400-50374800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
8	chr10:50365400-50374800	Weak transcription	Lung	lung
9	chr10:50365600-50369400	Weak transcription	Fetal Thymus	thymus
10	chr10:50366000-50373600	Weak transcription	Rectal Mucosa Donor 29	rectum
11	chr10:50366200-50378200	Weak transcription	Stomach Smooth Muscle	stomach
12	chr10:50366600-50369400	Enhancers	K562	blood
13	chr10:50366600-50369600	Weak transcription	Brain Substantia Nigra	brain
14	chr10:50366800-50369400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
15	chr10:50366800-50369400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
16	chr10:50366800-50370200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
17	chr10:50366800-50372400	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
18	chr10:50366800-50375400	Weak transcription	H1 Cell Line	embryonic stem cell
19	chr10:50367400-50369600	Weak transcription	HUES64 Cell Line	embryonic stem cell
20	chr10:50367600-50376200	Strong transcription	Primary hematopoietic stem cells short term culture	blood
21	chr10:50367600-50384600	Weak transcription	Dnd41	blood
22	chr10:50367800-50369400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
23	chr10:50368000-50371600	Strong transcription	Primary neutrophils fromperipheralblood	blood
24	chr10:50368000-50375600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
25	chr10:50368200-50369600	Weak transcription	HUES48 Cell Line	embryonic stem cell
26	chr10:50368200-50380800	Weak transcription	Esophagus	oesophagus
27	chr10:50368600-50369400	Strong transcription	Adipose Nuclei	Adipose
28	chr10:50368600-50372600	Weak transcription	Primary B cells from peripheral blood	blood
29	chr10:50368800-50370600	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
30	chr10:50368800-50370800	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
31	chr10:50368800-50371000	Strong transcription	Duodenum Mucosa	Duodenum
32	chr10:50369000-50370000	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
33	chr10:50369000-50377200	Weak transcription	Brain Angular Gyrus	brain
34	chr10:50369200-50370800	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--

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