Variant report

Variant	rs965480
Chromosome Location	chr15:77781926-77781927
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr15:77781373..77783585-chr15:77787780..77790261,2	K562	blood:
2	chr15:77761333..77763902-chr15:77780607..77782643,2	K562	blood:
3	chr15:77780057..77783537-chr15:77786052..77789166,3	MCF-7	breast:

Extended variants
information (count: 68 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:62)

rs_ID	r²[population]
rs1005752	0.91[CEU][hapmap];0.91[CHB][hapmap];0.91[JPT][hapmap];0.87[YRI][hapmap];0.84[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs10152181	0.91[AFR][1000 genomes];0.87[ASN][1000 genomes]
rs1022172	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11072653	0.95[CHB][hapmap];0.91[JPT][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];0.89[ASN][1000 genomes]
rs11632966	0.84[AFR][1000 genomes];0.88[ASN][1000 genomes]
rs11633054	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11636554	0.82[AFR][1000 genomes];0.84[ASN][1000 genomes]
rs11852471	0.91[AFR][1000 genomes];0.89[ASN][1000 genomes]
rs11854328	0.85[JPT][hapmap]
rs11857450	0.91[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11857860	0.91[JPT][hapmap]
rs11858641	0.95[CHB][hapmap];0.91[JPT][hapmap];1.00[YRI][hapmap]
rs1191196	0.95[CHB][hapmap];0.91[JPT][hapmap];0.88[ASN][1000 genomes]
rs12324627	0.95[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12900004	0.86[JPT][hapmap]
rs12901130	1.00[JPT][hapmap]
rs12901503	0.91[CEU][hapmap];0.90[CHB][hapmap];0.91[JPT][hapmap];0.87[YRI][hapmap];0.84[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs12904938	0.98[AFR][1000 genomes];0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12905951	0.88[AFR][1000 genomes];0.86[ASN][1000 genomes]
rs12906708	0.90[AFR][1000 genomes];0.88[ASN][1000 genomes]
rs12907746	0.87[JPT][hapmap]
rs12910361	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12910480	0.85[AFR][1000 genomes];0.86[ASN][1000 genomes]
rs12911371	0.93[AFR][1000 genomes];0.89[ASN][1000 genomes]
rs12912050	0.93[AFR][1000 genomes];0.88[ASN][1000 genomes]
rs12914345	0.91[AFR][1000 genomes];0.88[ASN][1000 genomes]
rs1389436	0.91[AFR][1000 genomes];0.88[ASN][1000 genomes]
rs1473922	0.95[CHB][hapmap];0.91[JPT][hapmap];1.00[YRI][hapmap];0.88[AFR][1000 genomes];0.88[ASN][1000 genomes]
rs1493700	0.84[AFR][1000 genomes];0.88[ASN][1000 genomes]
rs1565756	1.00[CEU][hapmap];0.95[CHB][hapmap];0.91[JPT][hapmap];0.81[AFR][1000 genomes];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1565757	0.86[AFR][1000 genomes];0.88[ASN][1000 genomes]
rs1602925	0.93[AFR][1000 genomes];0.89[ASN][1000 genomes]
rs2055901	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs34591043	1.00[CEU][hapmap];0.95[CHB][hapmap];0.91[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4886515	0.93[AFR][1000 genomes];0.89[ASN][1000 genomes]
rs4886858	0.85[ASN][1000 genomes]
rs4886862	0.88[ASN][1000 genomes]
rs4886866	0.95[CHB][hapmap];0.91[JPT][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];0.89[ASN][1000 genomes]
rs4886869	0.95[CHB][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs4886875	0.91[JPT][hapmap]
rs4886876	0.91[JPT][hapmap]
rs4886877	0.91[JPT][hapmap]
rs59153558	0.87[AMR][1000 genomes];0.89[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs62007299	0.98[AFR][1000 genomes];0.90[AMR][1000 genomes];0.91[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6495240	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7119	0.96[YRI][hapmap];0.88[AFR][1000 genomes]
rs7166927	0.91[AFR][1000 genomes];0.89[ASN][1000 genomes]
rs7167794	0.86[AFR][1000 genomes];0.86[ASN][1000 genomes]
rs7170877	0.83[EUR][1000 genomes]
rs7171448	0.82[EUR][1000 genomes]
rs7175674	0.91[AFR][1000 genomes];0.89[ASN][1000 genomes]
rs7176302	0.91[AFR][1000 genomes];0.89[ASN][1000 genomes]
rs7177055	0.82[EUR][1000 genomes]
rs7178572	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs8024485	1.00[CEU][hapmap];0.95[CHB][hapmap];0.91[JPT][hapmap];0.96[YRI][hapmap];0.98[AFR][1000 genomes];0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs8030074	0.87[AFR][1000 genomes];0.88[ASN][1000 genomes]
rs8034133	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs8037561	0.91[AFR][1000 genomes];0.89[ASN][1000 genomes]
rs869301	0.80[EUR][1000 genomes]
rs907388	0.82[EUR][1000 genomes]
rs952471	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs952472	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1040852	chr15:77160237-78137541	Enhancers Flanking Active TSS Active TSS Strong transcription Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	42 gene(s)	inside rSNPs	diseases
2	nsv1045376	chr15:77354671-77801487	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Strong transcription Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
3	nsv542443	chr15:77354671-77801487	Weak transcription Enhancers Genic enhancers Flanking Active TSS Active TSS ZNF genes & repeats Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
4	nsv916323	chr15:77485765-78121259	Enhancers Strong transcription Weak transcription Genic enhancers Bivalent Enhancer Active TSS Bivalent/Poised TSS Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
5	nsv1043284	chr15:77740632-77884026	Weak transcription Strong transcription Genic enhancers Enhancers Bivalent Enhancer Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	11 gene(s)	inside rSNPs	diseases
6	nsv570139	chr15:77762493-77865459	Weak transcription Enhancers Flanking Active TSS Strong transcription Genic enhancers Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	11 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:118 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:77770000-77789200	Weak transcription	Placenta Amnion	Placenta Amnion
2	chr15:77772400-77782800	Weak transcription	Small Intestine	intestine
3	chr15:77776200-77787600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
4	chr15:77776200-77788200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
5	chr15:77776200-77789000	Weak transcription	Colonic Mucosa	Colon
6	chr15:77776400-77788600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
7	chr15:77776600-77782000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
8	chr15:77776800-77785600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
9	chr15:77776800-77788200	Weak transcription	Lung	lung
10	chr15:77777000-77788000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
11	chr15:77777400-77785200	Weak transcription	GM12878-XiMat	blood
12	chr15:77777400-77785400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
13	chr15:77777400-77786400	Weak transcription	Colon Smooth Muscle	Colon
14	chr15:77777400-77787800	Weak transcription	Stomach Smooth Muscle	stomach
15	chr15:77777400-77788000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
16	chr15:77777400-77788000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
17	chr15:77777400-77788800	Weak transcription	Hela-S3	cervix
18	chr15:77777600-77783600	Weak transcription	K562	blood
19	chr15:77777600-77785400	Weak transcription	Primary hematopoietic stem cells	blood
20	chr15:77777600-77785600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
21	chr15:77777600-77785600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
22	chr15:77777600-77785600	Weak transcription	Thymus	Thymus
23	chr15:77777600-77787400	Weak transcription	Fetal Brain Female	brain
24	chr15:77777600-77787600	Weak transcription	Fetal Brain Male	brain
25	chr15:77777600-77787800	Weak transcription	Pancreas	Pancrea
26	chr15:77777600-77788200	Weak transcription	Brain Germinal Matrix	brain
27	chr15:77777600-77789000	Weak transcription	Fetal Intestine Large	intestine
28	chr15:77777600-77789400	Weak transcription	Aorta	Aorta
29	chr15:77777600-77789800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
30	chr15:77777600-77798600	Weak transcription	Rectal Mucosa Donor 31	rectum
31	chr15:77777800-77785200	Weak transcription	Primary monocytes fromperipheralblood	blood
32	chr15:77777800-77785200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
33	chr15:77777800-77785400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
34	chr15:77777800-77785400	Weak transcription	NH-A	brain
35	chr15:77777800-77785600	Weak transcription	Placenta	Placenta
36	chr15:77777800-77788000	Weak transcription	Cortex derived primary cultured neurospheres	brain
37	chr15:77777800-77788000	Weak transcription	Brain Cingulate Gyrus	brain
38	chr15:77777800-77788600	Weak transcription	HepG2	liver
39	chr15:77777800-77789000	Weak transcription	Duodenum Mucosa	Duodenum
40	chr15:77777800-77789000	Weak transcription	A549	lung
41	chr15:77778000-77785400	Weak transcription	Osteobl	bone
42	chr15:77778000-77785600	Weak transcription	Primary T cells fromperipheralblood	blood
43	chr15:77778000-77788000	Weak transcription	Duodenum Smooth Muscle	Duodenum
44	chr15:77778200-77785400	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
45	chr15:77778200-77787400	Weak transcription	Fetal Muscle Trunk	muscle
46	chr15:77778200-77788200	Weak transcription	Esophagus	oesophagus
47	chr15:77778600-77785200	Weak transcription	Liver	Liver
48	chr15:77779000-77785400	Weak transcription	Fetal Thymus	thymus
49	chr15:77779200-77788600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
50	chr15:77779400-77783000	Weak transcription	Fetal Kidney	kidney

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