Variant report

Variant	rs17754383
Chromosome Location	chr10:27075698-27075699
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr10:27074239..27077172-chr10:27148340..27151224,5	MCF-7	breast:
2	chr10:27066132..27067920-chr10:27074183..27076184,2	K562	blood:
3	chr10:27074245..27076242-chr10:27078041..27079548,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000136754	Chromatin interaction

Extended variants
information (count: 65 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:61)

rs_ID	r²[population]
rs10159978	0.88[CHB][hapmap];0.89[CHD][hapmap];0.82[ASN][1000 genomes]
rs10829072	0.98[ASN][1000 genomes]
rs10829083	0.82[ASN][1000 genomes]
rs10829088	0.82[ASN][1000 genomes]
rs11015266	0.88[CHB][hapmap];0.89[CHD][hapmap]
rs11015298	1.00[ASN][1000 genomes]
rs1115707	0.88[CHB][hapmap];0.89[CHD][hapmap];1.00[GIH][hapmap];1.00[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs12415181	0.87[EUR][1000 genomes]
rs12416351	0.87[EUR][1000 genomes]
rs12571068	0.87[EUR][1000 genomes]
rs12571996	0.87[EUR][1000 genomes]
rs12572166	1.00[EUR][1000 genomes]
rs17754419	0.88[CHB][hapmap];1.00[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs17754431	1.00[CHB][hapmap];1.00[CHD][hapmap];0.97[GIH][hapmap];0.91[JPT][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17816281	1.00[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs17816551	0.88[CHB][hapmap];1.00[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs17816804	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1815322	0.89[EUR][1000 genomes]
rs2296544	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2477924	0.89[EUR][1000 genomes]
rs2477926	0.89[EUR][1000 genomes]
rs2477927	0.89[EUR][1000 genomes]
rs3802611	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4628582	0.94[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72629715	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs72629716	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs72629717	1.00[AMR][1000 genomes]
rs72629718	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs72629719	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs72629720	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs72629721	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs72629722	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs72629723	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs72629724	1.00[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs72629725	1.00[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs72629726	1.00[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs72629727	1.00[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs72629728	1.00[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs72629729	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72629730	1.00[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs72629731	1.00[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs72629733	1.00[AMR][1000 genomes]
rs72629734	1.00[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs72629735	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs72629736	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs72629737	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs72629738	1.00[AMR][1000 genomes]
rs72629739	1.00[EUR][1000 genomes]
rs72629740	1.00[EUR][1000 genomes]
rs72629742	1.00[EUR][1000 genomes]
rs72629743	1.00[EUR][1000 genomes]
rs72629744	1.00[EUR][1000 genomes]
rs72629745	1.00[EUR][1000 genomes]
rs72629746	1.00[EUR][1000 genomes]
rs72629747	1.00[EUR][1000 genomes]
rs72629749	1.00[EUR][1000 genomes]
rs72629750	1.00[EUR][1000 genomes]
rs7894246	0.82[ASN][1000 genomes]
rs7910026	0.82[ASN][1000 genomes]
rs899372	1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs899373	0.82[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	esv3415799	chr10:26929831-27233591	Strong transcription Weak transcription Enhancers Active TSS Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
2	nsv933544	chr10:27005220-27111998	Weak transcription ZNF genes & repeats Enhancers Strong transcription Active TSS Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
3	nsv831812	chr10:27061506-27234267	Enhancers Weak transcription Strong transcription ZNF genes & repeats Flanking Active TSS Active TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
4	nsv971858	chr10:27066006-27157708	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Strong transcription Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:74 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:27044800-27082000	Weak transcription	Fetal Lung	lung
2	chr10:27051400-27082000	Weak transcription	Fetal Stomach	stomach
3	chr10:27058000-27079200	Weak transcription	Dnd41	blood
4	chr10:27068400-27079400	Weak transcription	Primary hematopoietic stem cells	blood
5	chr10:27069200-27078800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
6	chr10:27069400-27079600	Weak transcription	K562	blood
7	chr10:27069800-27084600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
8	chr10:27070200-27076600	Weak transcription	Fetal Muscle Leg	muscle
9	chr10:27070600-27082800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
10	chr10:27070800-27091800	Weak transcription	Primary neutrophils fromperipheralblood	blood
11	chr10:27071000-27080600	Weak transcription	Fetal Intestine Large	intestine
12	chr10:27071000-27080800	Weak transcription	Duodenum Smooth Muscle	Duodenum
13	chr10:27071000-27082000	Weak transcription	Fetal Brain Male	brain
14	chr10:27071000-27083800	Weak transcription	Fetal Intestine Small	intestine
15	chr10:27071000-27084600	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
16	chr10:27071200-27078000	Weak transcription	Psoas Muscle	Psoas
17	chr10:27071200-27078200	Weak transcription	Primary T helper naive cells from peripheral blood	blood
18	chr10:27071200-27079400	Weak transcription	HSMM	muscle
19	chr10:27071200-27079400	Weak transcription	Osteobl	bone
20	chr10:27071200-27079800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
21	chr10:27071200-27080800	Weak transcription	Brain Angular Gyrus	brain
22	chr10:27071200-27082000	Weak transcription	A549	lung
23	chr10:27071200-27089000	Weak transcription	Lung	lung
24	chr10:27071200-27089600	Weak transcription	Spleen	Spleen
25	chr10:27071400-27079200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
26	chr10:27071400-27080800	Weak transcription	Liver	Liver
27	chr10:27071400-27088600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
28	chr10:27072000-27081800	Weak transcription	NH-A	brain
29	chr10:27072200-27080200	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
30	chr10:27072400-27076400	Strong transcription	Primary B cells from cord blood	blood
31	chr10:27073000-27079400	Weak transcription	Small Intestine	intestine
32	chr10:27073000-27081000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
33	chr10:27073000-27087000	Weak transcription	Thymus	Thymus
34	chr10:27073000-27088200	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
35	chr10:27073200-27076000	Weak transcription	Cortex derived primary cultured neurospheres	brain
36	chr10:27073200-27076600	Strong transcription	Primary T cells from cord blood	blood
37	chr10:27073200-27079600	Weak transcription	Fetal Thymus	thymus
38	chr10:27073400-27076000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
39	chr10:27073400-27080600	Weak transcription	Brain Hippocampus Middle	brain
40	chr10:27073800-27080800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
41	chr10:27074000-27079400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
42	chr10:27074000-27080200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
43	chr10:27074000-27081800	Weak transcription	Brain Cingulate Gyrus	brain
44	chr10:27074000-27081800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
45	chr10:27074200-27075800	Weak transcription	Brain Anterior Caudate	brain
46	chr10:27074200-27076000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
47	chr10:27074200-27077200	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
48	chr10:27074200-27079400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
49	chr10:27074200-27082200	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
50	chr10:27074600-27081800	Weak transcription	Primary T killer naive cells fromperipheralblood	blood

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