Variant report

Variant	rs2305646
Chromosome Location	chr15:40595474-40595475
allele	A/C/G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	RCOR1	chr15:40595449-40595610	Hela-S3	cervix:	n/a	n/a

No.	Distal block	Cell Line	Cell type
1	chr15:40575377..40577430-chr15:40595263..40597103,2	K562	blood:
2	chr15:40588970..40591882-chr15:40594218..40598541,3	K562	blood:
3	chr15:40582529..40584941-chr15:40594036..40597315,3	MCF-7	breast:

Variant related genes	Relation type
PLCB2	TF binding region
ENSG00000137841	Chromatin interaction

Extended variants
information (count: 14 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:5)

rs_ID	r²[population]
rs2305645	1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs28676999	0.81[ASN][1000 genomes]
rs3784399	1.00[CHB][hapmap];0.83[ASN][1000 genomes]
rs55927878	0.98[ASN][1000 genomes]
rs56203022	0.96[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:9 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv471240	chr15:40528155-40595627	Bivalent Enhancer Bivalent/Poised TSS Flanking Active TSS Flanking Bivalent TSS/Enh Weak transcription Active TSS Enhancers Strong transcription Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
2	esv34145	chr15:40549617-40889824	Weak transcription Strong transcription Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	66 gene(s)	inside rSNPs	diseases
3	nsv904096	chr15:40550149-40604777	Enhancers Active TSS Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Weak transcription Strong transcription Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	20 gene(s)	inside rSNPs	diseases
4	nsv510660	chr15:40552906-40721883	Strong transcription Enhancers Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	34 gene(s)	inside rSNPs	diseases
5	nsv904097	chr15:40555065-40595627	Enhancers Weak transcription Flanking Bivalent TSS/Enh Strong transcription Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Active TSS Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
6	nsv517541	chr15:40557268-40595627	Weak transcription Flanking Bivalent TSS/Enh Enhancers Bivalent Enhancer Bivalent/Poised TSS Strong transcription Flanking Active TSS Genic enhancers Active TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
7	esv1850798	chr15:40560607-40622191	Enhancers Weak transcription Flanking Bivalent TSS/Enh Flanking Active TSS Active TSS Strong transcription Bivalent Enhancer Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases
8	nsv457118	chr15:40565705-40606484	Bivalent Enhancer Bivalent/Poised TSS Enhancers Weak transcription Strong transcription Active TSS Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
9	nsv569227	chr15:40565705-40606484	Bivalent/Poised TSS Bivalent Enhancer Enhancers Flanking Bivalent TSS/Enh Weak transcription Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:60 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:40578000-40596000	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
2	chr15:40579000-40595600	Strong transcription	Primary T cells fromperipheralblood	blood
3	chr15:40579200-40597000	Strong transcription	Primary T helper naive cells fromperipheralblood	blood
4	chr15:40583800-40596400	Strong transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
5	chr15:40584000-40596400	Strong transcription	Primary T helper 17 cells PMA-I stimulated	--
6	chr15:40584000-40596800	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
7	chr15:40584200-40599200	Weak transcription	Rectal Mucosa Donor 31	rectum
8	chr15:40584200-40614800	Weak transcription	Gastric	stomach
9	chr15:40584400-40599000	Weak transcription	Liver	Liver
10	chr15:40586800-40595600	Weak transcription	Brain Substantia Nigra	brain
11	chr15:40588000-40596000	Enhancers	Fetal Heart	heart
12	chr15:40589000-40599200	Weak transcription	Colon Smooth Muscle	Colon
13	chr15:40590000-40599600	Weak transcription	Pancreas	Pancrea
14	chr15:40590800-40596000	Strong transcription	Primary T helper memory cells from peripheral blood 2	blood
15	chr15:40591000-40597600	Weak transcription	Rectal Mucosa Donor 29	rectum
16	chr15:40591400-40598200	Weak transcription	Duodenum Mucosa	Duodenum
17	chr15:40591600-40598800	Weak transcription	Right Atrium	heart
18	chr15:40593000-40596600	Genic enhancers	Monocytes-CD14+_RO01746	blood
19	chr15:40593000-40596800	Strong transcription	Primary T cells from cord blood	blood
20	chr15:40593000-40596800	Genic enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
21	chr15:40593000-40598200	Genic enhancers	Primary monocytes fromperipheralblood	blood
22	chr15:40593200-40596200	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
23	chr15:40593200-40596600	Strong transcription	Primary T helper cells PMA-I stimulated	--
24	chr15:40593200-40597000	Genic enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
25	chr15:40593200-40597600	Strong transcription	Primary B cells from peripheral blood	blood
26	chr15:40593200-40597600	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
27	chr15:40593200-40598800	Weak transcription	Rectal Smooth Muscle	rectum
28	chr15:40593200-40599200	Weak transcription	Sigmoid Colon	Sigmoid Colon
29	chr15:40593400-40596400	Strong transcription	Thymus	Thymus
30	chr15:40593400-40596600	Strong transcription	Primary T helper cells fromperipheralblood	blood
31	chr15:40593400-40596600	Weak transcription	Primary T killer memory cells from peripheral blood	blood
32	chr15:40593400-40596800	Strong transcription	Spleen	Spleen
33	chr15:40593600-40595800	Weak transcription	Primary B cells from cord blood	blood
34	chr15:40593600-40598400	Weak transcription	Adipose Nuclei	Adipose
35	chr15:40593800-40596600	Weak transcription	Brain Hippocampus Middle	brain
36	chr15:40594200-40595600	Genic enhancers	Primary hematopoietic stem cells short term culture	blood
37	chr15:40594200-40598400	Weak transcription	Esophagus	oesophagus
38	chr15:40594200-40601000	Weak transcription	Fetal Lung	lung
39	chr15:40594400-40595600	Strong transcription	Fetal Thymus	thymus
40	chr15:40594400-40595800	Strong transcription	Lung	lung
41	chr15:40594400-40598400	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
42	chr15:40594600-40596400	Strong transcription	Primary neutrophils fromperipheralblood	blood
43	chr15:40594600-40598400	Weak transcription	Left Ventricle	heart
44	chr15:40594600-40598600	Weak transcription	HUES6 Cell Line	embryonic stem cell
45	chr15:40594600-40598600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
46	chr15:40594600-40599200	Weak transcription	HUES48 Cell Line	embryonic stem cell
47	chr15:40594800-40595600	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
48	chr15:40594800-40596600	Strong transcription	Primary hematopoietic stem cells	blood
49	chr15:40594800-40598600	Weak transcription	H1 Cell Line	embryonic stem cell
50	chr15:40595000-40599600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived

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