Variant report

Variant	rs2615243
Chromosome Location	chr15:57441315-57441316
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr15:57209403..57213183-chr15:57438186..57441495,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000140262	Chromatin interaction
ENSG00000137871	Chromatin interaction

Extended variants
information (count: 16 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:13)

rs_ID	r²[population]
rs1020888	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16977269	0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2011551	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2593246	0.95[AFR][1000 genomes];0.86[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4774911	0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4774912	0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs55702628	0.93[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs59239112	1.00[ASN][1000 genomes]
rs59799036	0.91[ASN][1000 genomes]
rs6493902	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6493904	0.93[EUR][1000 genomes]
rs73415456	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8040557	0.93[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:97 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:57387600-57442400	Weak transcription	Fetal Intestine Large	intestine
2	chr15:57425800-57442200	Weak transcription	Right Ventricle	heart
3	chr15:57427400-57442600	Weak transcription	Sigmoid Colon	Sigmoid Colon
4	chr15:57428400-57442200	Weak transcription	Primary T cells from cord blood	blood
5	chr15:57428600-57444000	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
6	chr15:57433000-57444000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
7	chr15:57436000-57442200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
8	chr15:57437200-57441400	Weak transcription	Primary neutrophils fromperipheralblood	blood
9	chr15:57437200-57442600	Weak transcription	K562	blood
10	chr15:57437800-57442000	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
11	chr15:57438400-57442800	Enhancers	Breast Myoepithelial Primary Cells	Breast
12	chr15:57438600-57444000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
13	chr15:57438800-57441600	Enhancers	Primary monocytes fromperipheralblood	blood
14	chr15:57438800-57441600	Enhancers	Liver	Liver
15	chr15:57439000-57442800	Enhancers	Brain Substantia Nigra	brain
16	chr15:57439000-57463400	Weak transcription	Rectal Mucosa Donor 31	rectum
17	chr15:57439200-57441600	Enhancers	Brain Germinal Matrix	brain
18	chr15:57439200-57441600	Enhancers	Brain Inferior Temporal Lobe	brain
19	chr15:57439200-57441600	Enhancers	Duodenum Smooth Muscle	Duodenum
20	chr15:57439200-57441600	Enhancers	Fetal Brain Male	brain
21	chr15:57439200-57441600	Enhancers	Monocytes-CD14+_RO01746	blood
22	chr15:57439200-57442200	Weak transcription	Primary hematopoietic stem cells	blood
23	chr15:57439200-57442400	Enhancers	Brain Cingulate Gyrus	brain
24	chr15:57439200-57442400	Enhancers	Colon Smooth Muscle	Colon
25	chr15:57439200-57442600	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
26	chr15:57439200-57442800	Enhancers	Cortex derived primary cultured neurospheres	brain
27	chr15:57439200-57442800	Enhancers	Brain Angular Gyrus	brain
28	chr15:57439200-57443400	Weak transcription	HUES6 Cell Line	embryonic stem cell
29	chr15:57439200-57443600	Weak transcription	H1 Cell Line	embryonic stem cell
30	chr15:57439200-57443600	Weak transcription	A549	lung
31	chr15:57439200-57443800	Weak transcription	Primary T helper cells PMA-I stimulated	--
32	chr15:57439400-57441400	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
33	chr15:57439400-57441400	Weak transcription	NH-A	brain
34	chr15:57439400-57442200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
35	chr15:57439400-57442200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
36	chr15:57439400-57442200	Weak transcription	HSMM	muscle
37	chr15:57439400-57442400	Enhancers	Rectal Smooth Muscle	rectum
38	chr15:57439400-57442600	Enhancers	Brain Anterior Caudate	brain
39	chr15:57439400-57442600	Enhancers	Brain Hippocampus Middle	brain
40	chr15:57439400-57443000	Enhancers	Adipose Nuclei	Adipose
41	chr15:57439400-57443200	Weak transcription	Primary hematopoietic stem cells short term culture	blood
42	chr15:57439400-57443200	Weak transcription	Fetal Intestine Small	intestine
43	chr15:57439400-57443600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
44	chr15:57439400-57444000	Weak transcription	HUES48 Cell Line	embryonic stem cell
45	chr15:57439400-57444000	Weak transcription	Rectal Mucosa Donor 29	rectum
46	chr15:57439400-57456000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
47	chr15:57439400-57491600	Weak transcription	Primary T killer memory cells from peripheral blood	blood
48	chr15:57439600-57444000	Weak transcription	iPS-18 Cell Line	embryonic stem cell
49	chr15:57440000-57441400	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
50	chr15:57440000-57441600	Enhancers	Fetal Stomach	stomach

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