Variant report

Variant	rs34560099
Chromosome Location	chr15:57384061-57384062
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr15:57208382..57211323-chr15:57382573..57384078,2	MCF-7	breast:
2	chr15:57382063..57385012-chr15:57386808..57389098,2	K562	blood:
3	chr15:57373645..57376211-chr15:57382766..57385379,2	K562	blood:

Variant related genes	Relation type
ENSG00000137871	Chromatin interaction
ENSG00000140262	Chromatin interaction

Extended variants
information (count: 47 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:44)

rs_ID	r²[population]
rs1045665	0.80[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10518898	0.80[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10518904	0.80[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12439266	0.92[AFR][1000 genomes]
rs16953323	0.80[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16977155	0.80[AMR][1000 genomes]
rs16977181	0.80[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16977199	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16977217	1.00[AMR][1000 genomes]
rs16977218	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16977232	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16977235	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16977242	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16977244	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16977245	0.87[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16977253	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16977272	0.80[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16977276	0.80[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16977280	0.80[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16977284	0.80[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16977297	0.80[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16977308	0.80[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16977312	0.80[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16977315	0.80[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16977329	1.00[EUR][1000 genomes]
rs16977330	0.80[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16977333	0.80[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16977341	0.80[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16977352	0.80[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16977353	0.80[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16977354	0.80[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16977372	0.80[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17415738	0.80[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1867639	1.00[EUR][1000 genomes]
rs2593220	1.00[EUR][1000 genomes]
rs2615251	1.00[EUR][1000 genomes]
rs2733316	1.00[EUR][1000 genomes]
rs2733317	1.00[EUR][1000 genomes]
rs2733343	1.00[EUR][1000 genomes]
rs2733345	1.00[EUR][1000 genomes]
rs28576265	1.00[EUR][1000 genomes]
rs41472450	0.80[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs935327	1.00[EUR][1000 genomes]
rs935329	1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1042486	chr15:57094598-57505992	Strong transcription Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	21 gene(s)	inside rSNPs	diseases
2	nsv904251	chr15:57241970-57575916	Enhancers Weak transcription Strong transcription ZNF genes & repeats Flanking Active TSS Genic enhancers 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	nsv1045611	chr15:57350965-58070807	Weak transcription Enhancers Strong transcription Genic enhancers Flanking Active TSS Active TSS ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	49 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:89 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:57324600-57398600	Weak transcription	Fetal Muscle Leg	muscle
2	chr15:57353800-57406400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
3	chr15:57354200-57384600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
4	chr15:57356000-57393400	Weak transcription	Thymus	Thymus
5	chr15:57362800-57384200	Weak transcription	HepG2	liver
6	chr15:57365600-57385200	Weak transcription	HSMM	muscle
7	chr15:57372600-57386000	Weak transcription	iPS-18 Cell Line	embryonic stem cell
8	chr15:57372600-57404000	Weak transcription	HSMMtube	muscle
9	chr15:57372600-57404200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
10	chr15:57372800-57384400	Weak transcription	Liver	Liver
11	chr15:57372800-57386000	Weak transcription	HUES48 Cell Line	embryonic stem cell
12	chr15:57372800-57410200	Weak transcription	Muscle Satellite Cultured Cells	--
13	chr15:57373000-57384600	Weak transcription	Primary B cells from peripheral blood	blood
14	chr15:57373000-57385400	Weak transcription	Primary B cells from cord blood	blood
15	chr15:57373200-57384200	Weak transcription	Primary monocytes fromperipheralblood	blood
16	chr15:57373200-57384600	Weak transcription	Primary T helper cells fromperipheralblood	blood
17	chr15:57374000-57385000	Weak transcription	Primary T cells fromperipheralblood	blood
18	chr15:57374400-57389400	Weak transcription	NHEK	skin
19	chr15:57374600-57386000	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
20	chr15:57374600-57390000	Weak transcription	HMEC	breast
21	chr15:57374600-57398600	Weak transcription	Primary T helper cells PMA-I stimulated	--
22	chr15:57374800-57384400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
23	chr15:57374800-57386800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
24	chr15:57374800-57387800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
25	chr15:57374800-57397800	Weak transcription	Primary hematopoietic stem cells short term culture	blood
26	chr15:57374800-57409600	Weak transcription	Osteobl	bone
27	chr15:57374800-57414600	Weak transcription	Fetal Kidney	kidney
28	chr15:57375000-57385000	Weak transcription	Duodenum Mucosa	Duodenum
29	chr15:57375000-57386200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
30	chr15:57375000-57386200	Weak transcription	Skeletal Muscle Female	skeletal muscle
31	chr15:57375000-57393400	Weak transcription	Fetal Intestine Small	intestine
32	chr15:57375000-57398000	Weak transcription	NH-A	brain
33	chr15:57375000-57398400	Weak transcription	Primary hematopoietic stem cells	blood
34	chr15:57376200-57385800	Weak transcription	Rectal Mucosa Donor 29	rectum
35	chr15:57376200-57406000	Weak transcription	Rectal Mucosa Donor 31	rectum
36	chr15:57376600-57386200	Weak transcription	Duodenum Smooth Muscle	Duodenum
37	chr15:57376800-57397000	Weak transcription	Fetal Stomach	stomach
38	chr15:57378000-57386600	Weak transcription	A549	lung
39	chr15:57378200-57385200	Weak transcription	Fetal Heart	heart
40	chr15:57378200-57385600	Weak transcription	Fetal Intestine Large	intestine
41	chr15:57378200-57386000	Weak transcription	HUVEC	blood vessel
42	chr15:57379400-57386200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
43	chr15:57379400-57390600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
44	chr15:57380200-57401000	Strong transcription	Fetal Thymus	thymus
45	chr15:57380400-57392400	Weak transcription	Primary neutrophils fromperipheralblood	blood
46	chr15:57381000-57412400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
47	chr15:57381200-57385400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
48	chr15:57381200-57404400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
49	chr15:57381200-57409400	Weak transcription	NHLF	lung
50	chr15:57381800-57403200	Weak transcription	H1 Cell Line	embryonic stem cell

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