Variant report

Variant	rs11006141
Chromosome Location	chr10:52322047-52322048
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:15)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:15 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr10:52319465..52323601-chr10:52381894..52385353,11	MCF-7	breast:
2	chr10:52321910..52324715-chr10:52371827..52374232,3	K562	blood:
3	chr10:52309255..52311683-chr10:52321787..52323365,2	K562	blood:
4	chr10:52321429..52322179-chr10:52412685..52413604,3	K562	blood:
5	chr10:52321608..52322162-chr10:52374026..52374665,2	K562	blood:
6	chr10:52321520..52322241-chr10:52381687..52382340,3	MCF-7	breast:
7	chr10:52321225..52322115-chr10:52384431..52385212,4	K562	blood:
8	chr10:52319643..52322201-chr10:52358538..52360204,2	MCF-7	breast:
9	chr10:52318973..52324648-chr10:52334040..52339164,5	K562	blood:
10	chr10:52319893..52329540-chr10:52377624..52388129,20	MCF-7	breast:
11	chr10:52321239..52322152-chr10:52412979..52413544,2	MCF-7	breast:
12	chr10:52321488..52322151-chr10:52374019..52374674,2	MCF-7	breast:
13	chr10:52319647..52323316-chr10:52382184..52387388,6	K562	blood:
14	chr10:52321318..52322646-chr10:52381436..52382589,4	MCF-7	breast:
15	chr10:52176588..52178104-chr10:52321160..52323318,2	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000198964	Chromatin interaction
ENSG00000226200	Chromatin interaction

Extended variants
information (count: 56 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:49)

rs_ID	r²[population]
rs1010930	0.92[AFR][1000 genomes];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10763535	0.94[CHB][hapmap];0.90[JPT][hapmap];1.00[ASN][1000 genomes]
rs10763550	0.91[CHB][hapmap];0.85[CHD][hapmap];0.86[JPT][hapmap];0.93[ASN][1000 genomes]
rs10763560	0.95[CHB][hapmap];0.85[JPT][hapmap];0.85[YRI][hapmap];0.89[ASN][1000 genomes]
rs10763566	0.91[CHB][hapmap];0.88[CHD][hapmap];0.86[JPT][hapmap];0.90[ASN][1000 genomes]
rs10826149	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10826155	0.88[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10826159	0.88[AFR][1000 genomes];0.94[AMR][1000 genomes];0.88[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10826160	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[YRI][hapmap];0.88[AFR][1000 genomes];0.94[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10826161	0.95[CHB][hapmap];1.00[CHD][hapmap];0.83[GIH][hapmap];1.00[JPT][hapmap];0.84[LWK][hapmap];1.00[ASN][1000 genomes]
rs10826163	0.92[AFR][1000 genomes];0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10826164	0.92[AFR][1000 genomes];0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10826165	0.86[AFR][1000 genomes];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10826166	0.95[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs10826167	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.98[TSI][hapmap];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10826170	0.94[ASN][1000 genomes]
rs10826228	0.90[ASN][1000 genomes]
rs11006084	0.95[CHB][hapmap];1.00[CHD][hapmap];0.83[GIH][hapmap];1.00[JPT][hapmap];0.84[LWK][hapmap];0.98[ASN][1000 genomes]
rs11006114	0.95[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.84[LWK][hapmap];1.00[ASN][1000 genomes]
rs11006118	0.90[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs11006160	0.92[ASN][1000 genomes]
rs11006201	0.87[ASN][1000 genomes]
rs11006217	0.86[CHB][hapmap];0.88[CHD][hapmap];0.86[JPT][hapmap];0.90[ASN][1000 genomes]
rs12415817	0.95[CHB][hapmap];1.00[CHD][hapmap];0.83[GIH][hapmap];1.00[JPT][hapmap];0.84[LWK][hapmap];1.00[ASN][1000 genomes]
rs12415836	1.00[ASN][1000 genomes]
rs12572387	0.91[CHB][hapmap];0.86[JPT][hapmap];0.90[ASN][1000 genomes]
rs1884570	0.88[AFR][1000 genomes];0.94[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2144861	0.82[CHB][hapmap];1.00[CHD][hapmap];0.83[GIH][hapmap];0.95[JPT][hapmap];0.84[LWK][hapmap];0.94[ASN][1000 genomes]
rs2208036	0.81[YRI][hapmap]
rs2224249	0.91[ASW][hapmap];0.95[CHB][hapmap];0.88[CHD][hapmap];0.86[GIH][hapmap];0.86[JPT][hapmap];0.96[MEX][hapmap];0.85[MKK][hapmap];0.84[TSI][hapmap];1.00[YRI][hapmap];0.85[AMR][1000 genomes];0.83[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs3011777	0.95[CHB][hapmap];0.88[CHD][hapmap];0.91[JPT][hapmap];0.88[ASN][1000 genomes]
rs34659292	1.00[ASN][1000 genomes]
rs36122110	1.00[ASN][1000 genomes]
rs4935173	0.95[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs4935174	0.95[CHB][hapmap];1.00[CHD][hapmap];0.83[GIH][hapmap];1.00[JPT][hapmap];0.99[ASN][1000 genomes]
rs4935733	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7074764	0.91[CHB][hapmap];0.86[JPT][hapmap];0.90[ASN][1000 genomes]
rs7078284	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7088141	0.91[CHB][hapmap];0.86[JPT][hapmap];0.90[ASN][1000 genomes]
rs7088807	0.81[YRI][hapmap]
rs7094143	1.00[ASN][1000 genomes]
rs7893884	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.92[AFR][1000 genomes];0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7900424	0.95[CHB][hapmap];0.86[JPT][hapmap];1.00[YRI][hapmap];0.85[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs7902354	0.81[ASN][1000 genomes]
rs7907260	0.95[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs7915606	0.95[CHB][hapmap];0.81[JPT][hapmap];1.00[YRI][hapmap];0.83[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs7916397	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];0.93[YRI][hapmap];0.92[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9299582	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];0.98[TSI][hapmap];0.93[YRI][hapmap];0.92[AFR][1000 genomes];0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9919413	0.95[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1054775	chr10:51595893-52392361	Enhancers ZNF genes & repeats Weak transcription Active TSS Strong transcription Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	43 gene(s)	inside rSNPs	diseases
2	nsv1051087	chr10:51886486-52447295	Enhancers Active TSS Flanking Active TSS Bivalent/Poised TSS Weak transcription Strong transcription Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	32 gene(s)	inside rSNPs	diseases
3	nsv916214	chr10:51886486-52458983	Active TSS Enhancers Strong transcription Weak transcription Bivalent/Poised TSS Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	33 gene(s)	inside rSNPs	diseases
4	nsv918212	chr10:51886486-52465482	Enhancers Weak transcription Active TSS Flanking Active TSS Transcr. at gene 5' and 3' Strong transcription ZNF genes & repeats Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	33 gene(s)	inside rSNPs	diseases
5	nsv817412	chr10:51911034-52432990	Weak transcription Enhancers Genic enhancers Active TSS Strong transcription ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	31 gene(s)	inside rSNPs	diseases
6	nsv469522	chr10:52276564-52447589	Flanking Active TSS Enhancers Weak transcription Active TSS Transcr. at gene 5' and 3' Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	24 gene(s)	inside rSNPs	diseases
7	nsv482564	chr10:52276564-52447589	Enhancers Flanking Active TSS Active TSS Weak transcription Strong transcription Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	24 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:87 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:52280200-52328000	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
2	chr10:52300800-52322800	Weak transcription	Primary B cells from cord blood	blood
3	chr10:52301600-52327200	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
4	chr10:52305400-52329600	Weak transcription	Primary T cells fromperipheralblood	blood
5	chr10:52306000-52331800	Weak transcription	Primary T helper cells PMA-I stimulated	--
6	chr10:52308000-52337200	Weak transcription	Primary T cells from cord blood	blood
7	chr10:52310400-52323800	Weak transcription	Rectal Mucosa Donor 31	rectum
8	chr10:52310600-52323600	Weak transcription	Sigmoid Colon	Sigmoid Colon
9	chr10:52310600-52327200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
10	chr10:52311000-52323600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
11	chr10:52311000-52335800	Weak transcription	Esophagus	oesophagus
12	chr10:52312800-52335800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
13	chr10:52312800-52335800	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
14	chr10:52313000-52322800	Weak transcription	H1 Cell Line	embryonic stem cell
15	chr10:52313200-52333200	Weak transcription	Primary T killer memory cells from peripheral blood	blood
16	chr10:52313600-52337400	Weak transcription	Primary T helper naive cells from peripheral blood	blood
17	chr10:52315000-52322800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
18	chr10:52315000-52329600	Weak transcription	H9 Cell Line	embryonic stem cell
19	chr10:52315200-52323600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
20	chr10:52315200-52337400	Weak transcription	Placenta Amnion	Placenta Amnion
21	chr10:52315600-52323800	Weak transcription	Rectal Mucosa Donor 29	rectum
22	chr10:52315600-52336000	Weak transcription	GM12878-XiMat	blood
23	chr10:52316000-52323600	Weak transcription	Fetal Intestine Small	intestine
24	chr10:52316400-52322200	Weak transcription	Placenta	Placenta
25	chr10:52316400-52322800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
26	chr10:52316400-52323600	Weak transcription	Gastric	stomach
27	chr10:52316400-52325200	Weak transcription	Primary B cells from peripheral blood	blood
28	chr10:52316400-52327200	Weak transcription	Fetal Muscle Leg	muscle
29	chr10:52316400-52331800	Weak transcription	Lung	lung
30	chr10:52316800-52332000	Weak transcription	Aorta	Aorta
31	chr10:52316800-52332600	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
32	chr10:52318200-52331800	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
33	chr10:52318400-52323800	Weak transcription	Small Intestine	intestine
34	chr10:52318400-52329600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
35	chr10:52319000-52323600	Weak transcription	Left Ventricle	heart
36	chr10:52319200-52335800	Weak transcription	Spleen	Spleen
37	chr10:52319400-52323800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
38	chr10:52319600-52335600	Weak transcription	NHEK	skin
39	chr10:52320200-52322200	Enhancers	NHLF	lung
40	chr10:52320400-52325400	Enhancers	Liver	Liver
41	chr10:52320600-52322200	Enhancers	Fetal Heart	heart
42	chr10:52320600-52322400	Genic enhancers	K562	blood
43	chr10:52320600-52322800	Enhancers	Fetal Lung	lung
44	chr10:52320600-52323000	Enhancers	Brain Cingulate Gyrus	brain
45	chr10:52320800-52322200	Enhancers	iPS-18 Cell Line	embryonic stem cell
46	chr10:52321000-52322200	Enhancers	HUES6 Cell Line	embryonic stem cell
47	chr10:52321200-52322200	Enhancers	Fetal Brain Male	brain
48	chr10:52321200-52325200	Weak transcription	Right Ventricle	heart
49	chr10:52321400-52323600	Weak transcription	Duodenum Mucosa	Duodenum
50	chr10:52321400-52324600	Weak transcription	iPS-20b Cell Line	embryonic stem cell

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