Variant report

Variant	rs2455899
Chromosome Location	chr15:76171807-76171808
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr15:76146991..76149009-chr15:76171055..76173285,2	MCF-7	breast:
2	chr15:76135137..76138188-chr15:76170670..76173354,3	K562	blood:
3	chr15:76135137..76136844-chr15:76170670..76173354,2	K562	blood:

Variant related genes	Relation type
ENSG00000140367	Chromatin interaction

Extended variants
information (count: 31 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:29)

rs_ID	r²[population]
rs12910576	0.87[AMR][1000 genomes]
rs12915012	0.84[AMR][1000 genomes]
rs1391894	0.93[CEU][hapmap];0.91[CHB][hapmap];0.92[JPT][hapmap];1.00[YRI][hapmap]
rs1695378	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1699263	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs184580	0.84[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs189197	0.93[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2255701	0.93[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2441929	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2460798	1.00[CEU][hapmap];0.92[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2460800	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2469039	0.93[CEU][hapmap];0.91[CHB][hapmap];0.92[JPT][hapmap];1.00[YRI][hapmap];0.90[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs2593277	0.89[AFR][1000 genomes];0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2593278	0.86[AFR][1000 genomes];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2593280	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs28876229	0.92[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs2959852	0.80[EUR][1000 genomes]
rs334930	0.93[CEU][hapmap];0.80[CHB][hapmap];0.84[JPT][hapmap]
rs334934	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs335681	0.86[CEU][hapmap];0.90[CHB][hapmap];0.92[JPT][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes];0.97[AMR][1000 genomes];0.88[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs335697	0.93[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.96[AFR][1000 genomes];0.97[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs335706	0.86[CEU][hapmap];0.89[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs335711	0.93[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4886747	0.87[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];0.88[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4886753	0.93[CEU][hapmap];0.90[CHB][hapmap];0.92[JPT][hapmap];1.00[YRI][hapmap];0.92[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs4886754	1.00[CEU][hapmap];0.89[CHB][hapmap];0.92[JPT][hapmap];0.95[YRI][hapmap];0.92[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs71403522	0.94[AFR][1000 genomes];0.97[AMR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs8024155	0.92[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs985849	0.93[CEU][hapmap];0.90[CHB][hapmap];0.92[JPT][hapmap];1.00[YRI][hapmap];0.90[AMR][1000 genomes];0.87[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv531903	chr15:75889302-76342128	Weak transcription Enhancers Strong transcription Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	97 gene(s)	inside rSNPs	diseases
2	nsv1044733	chr15:76120924-76228880	Flanking Active TSS Strong transcription Active TSS Weak transcription Enhancers Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	21 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:120 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:76137800-76188400	Weak transcription	Brain Anterior Caudate	brain
2	chr15:76138000-76179600	Weak transcription	Small Intestine	intestine
3	chr15:76138200-76183000	Weak transcription	Hela-S3	cervix
4	chr15:76138200-76195200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
5	chr15:76138200-76195400	Weak transcription	Brain Cingulate Gyrus	brain
6	chr15:76138400-76184000	Weak transcription	Placenta Amnion	Placenta Amnion
7	chr15:76140000-76184000	Weak transcription	Fetal Kidney	kidney
8	chr15:76141400-76195200	Weak transcription	Rectal Smooth Muscle	rectum
9	chr15:76145200-76195200	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
10	chr15:76149000-76195600	Weak transcription	Colonic Mucosa	Colon
11	chr15:76152800-76193400	Weak transcription	Pancreatic Islets	Pancreatic Islet
12	chr15:76159800-76195400	Weak transcription	Brain Hippocampus Middle	brain
13	chr15:76160800-76176000	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
14	chr15:76161000-76182200	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
15	chr15:76161200-76172600	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
16	chr15:76161800-76182000	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
17	chr15:76162000-76176600	Strong transcription	Primary monocytes fromperipheralblood	blood
18	chr15:76162000-76184000	Strong transcription	Monocytes-CD14+_RO01746	blood
19	chr15:76164200-76177200	Strong transcription	Dnd41	blood
20	chr15:76164200-76182400	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
21	chr15:76164400-76176800	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
22	chr15:76164800-76176000	Weak transcription	Fetal Heart	heart
23	chr15:76165000-76178400	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
24	chr15:76165400-76188800	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
25	chr15:76165600-76172000	Strong transcription	HUES6 Cell Line	embryonic stem cell
26	chr15:76165600-76172600	Strong transcription	iPS-18 Cell Line	embryonic stem cell
27	chr15:76165600-76175800	Strong transcription	Primary T helper cells fromperipheralblood	blood
28	chr15:76165600-76185800	Strong transcription	iPS-20b Cell Line	embryonic stem cell
29	chr15:76165600-76194800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
30	chr15:76165800-76172400	Strong transcription	Primary T cells fromperipheralblood	blood
31	chr15:76165800-76172600	Strong transcription	Fetal Thymus	thymus
32	chr15:76165800-76186600	Strong transcription	HUES64 Cell Line	embryonic stem cell
33	chr15:76166000-76172200	Strong transcription	Cortex derived primary cultured neurospheres	brain
34	chr15:76166200-76186600	Strong transcription	HUES48 Cell Line	embryonic stem cell
35	chr15:76166400-76193600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
36	chr15:76166400-76194600	Weak transcription	Colon Smooth Muscle	Colon
37	chr15:76166400-76195200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
38	chr15:76166400-76195400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
39	chr15:76166400-76195800	Weak transcription	Gastric	stomach
40	chr15:76166600-76176000	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
41	chr15:76166600-76177400	Weak transcription	Liver	Liver
42	chr15:76166600-76194400	Weak transcription	Right Ventricle	heart
43	chr15:76166600-76195200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
44	chr15:76166600-76195400	Weak transcription	Duodenum Mucosa	Duodenum
45	chr15:76166600-76195800	Weak transcription	Aorta	Aorta
46	chr15:76166800-76184200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
47	chr15:76166800-76195400	Weak transcription	Fetal Intestine Small	intestine
48	chr15:76167000-76172600	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
49	chr15:76167000-76177000	Weak transcription	Thymus	Thymus
50	chr15:76167000-76177400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived

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