Variant report

Variant	rs6495240
Chromosome Location	chr15:77766556-77766557
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 74 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:68)

rs_ID	r²[population]
rs1005752	1.00[CHB][hapmap];0.94[JPT][hapmap];0.86[YRI][hapmap];0.85[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs10152181	0.93[AFR][1000 genomes];0.82[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs1022172	0.98[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11072653	1.00[CHB][hapmap];0.89[JPT][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];0.82[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs11632966	0.85[AFR][1000 genomes];0.82[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs11633054	1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11636554	0.84[AFR][1000 genomes];0.82[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs11852471	0.93[AFR][1000 genomes];0.82[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs11854328	0.94[JPT][hapmap]
rs11857294	0.81[ASN][1000 genomes]
rs11857450	1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11857860	1.00[JPT][hapmap]
rs11858641	1.00[CHB][hapmap];0.89[JPT][hapmap];1.00[YRI][hapmap]
rs1191196	1.00[CHB][hapmap];0.89[JPT][hapmap];0.95[ASN][1000 genomes]
rs12324627	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12591335	0.84[CHB][hapmap]
rs12900004	1.00[JPT][hapmap]
rs12901130	1.00[JPT][hapmap]
rs12901503	1.00[CHB][hapmap];0.94[JPT][hapmap];0.86[YRI][hapmap];0.85[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs12904938	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12905951	0.90[AFR][1000 genomes];0.82[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs12906708	0.91[AFR][1000 genomes];0.81[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs12907746	1.00[JPT][hapmap]
rs12910361	0.98[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12910480	0.87[AFR][1000 genomes];0.81[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs12911371	0.94[AFR][1000 genomes];0.82[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs12912050	0.94[AFR][1000 genomes];0.82[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs12914345	0.93[AFR][1000 genomes];0.82[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs1389436	0.93[AFR][1000 genomes];0.82[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs1473922	1.00[CHB][hapmap];0.89[JPT][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];0.82[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs1493700	0.86[AFR][1000 genomes];0.82[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs1565756	1.00[CHB][hapmap];0.89[JPT][hapmap];0.80[YRI][hapmap];0.83[AFR][1000 genomes];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1565757	0.87[AFR][1000 genomes];0.82[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs1602925	0.94[AFR][1000 genomes];0.82[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs2055901	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34591043	1.00[CHB][hapmap];0.89[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4886515	0.94[AFR][1000 genomes];0.82[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs4886858	0.92[ASN][1000 genomes]
rs4886862	0.95[ASN][1000 genomes]
rs4886866	1.00[CHB][hapmap];0.89[JPT][hapmap];1.00[YRI][hapmap];0.92[AFR][1000 genomes];0.82[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs4886869	1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs4886875	1.00[JPT][hapmap]
rs4886876	1.00[JPT][hapmap]
rs4886877	1.00[JPT][hapmap]
rs59153558	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs62007299	0.99[AFR][1000 genomes];0.96[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs62009066	0.81[ASN][1000 genomes]
rs7119	0.96[YRI][hapmap];0.86[AFR][1000 genomes]
rs7162637	0.94[JPT][hapmap]
rs7166927	0.93[AFR][1000 genomes];0.82[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs7167794	0.87[AFR][1000 genomes];0.82[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs7170877	0.85[EUR][1000 genomes]
rs7171448	0.85[EUR][1000 genomes]
rs7172144	0.83[EUR][1000 genomes]
rs7175674	0.93[AFR][1000 genomes];0.82[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs7176302	0.93[AFR][1000 genomes];0.82[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs7177055	0.84[EUR][1000 genomes]
rs7178572	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8024485	1.00[CHB][hapmap];0.89[JPT][hapmap];0.96[YRI][hapmap];1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs8030074	0.88[AFR][1000 genomes];0.82[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs8034133	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8037561	0.93[AFR][1000 genomes];0.82[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs869301	0.83[EUR][1000 genomes]
rs907372	0.89[JPT][hapmap]
rs907388	0.85[EUR][1000 genomes]
rs952471	0.98[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs952472	0.98[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs965480	0.98[AFR][1000 genomes];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.92[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:126 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:77748200-77766800	Weak transcription	Aorta	Aorta
2	chr15:77748400-77770600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
3	chr15:77749000-77770400	Weak transcription	Spleen	Spleen
4	chr15:77750000-77770400	Weak transcription	H9 Cell Line	embryonic stem cell
5	chr15:77750200-77767000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
6	chr15:77750400-77777800	Strong transcription	Primary B cells from peripheral blood	blood
7	chr15:77750600-77777800	Strong transcription	Monocytes-CD14+_RO01746	blood
8	chr15:77750600-77779200	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
9	chr15:77750600-77779600	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
10	chr15:77750800-77768200	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
11	chr15:77750800-77768200	Strong transcription	Liver	Liver
12	chr15:77750800-77768200	Strong transcription	Fetal Intestine Large	intestine
13	chr15:77750800-77768400	Strong transcription	Primary T cells from cord blood	blood
14	chr15:77750800-77780400	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
15	chr15:77751000-77768600	Strong transcription	Primary hematopoietic stem cells short term culture	blood
16	chr15:77751000-77770600	Weak transcription	Gastric	stomach
17	chr15:77751000-77770600	Weak transcription	Right Atrium	heart
18	chr15:77751000-77773600	Weak transcription	Stomach Mucosa	stomach
19	chr15:77753400-77777600	Strong transcription	Rectal Mucosa Donor 31	rectum
20	chr15:77753600-77766600	Strong transcription	GM12878-XiMat	blood
21	chr15:77754000-77767800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
22	chr15:77755000-77768600	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
23	chr15:77755200-77768000	Strong transcription	Rectal Mucosa Donor 29	rectum
24	chr15:77755200-77775600	Strong transcription	Duodenum Mucosa	Duodenum
25	chr15:77755400-77768200	Strong transcription	Primary B cells from cord blood	blood
26	chr15:77755400-77777800	Strong transcription	Primary monocytes fromperipheralblood	blood
27	chr15:77755600-77768600	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
28	chr15:77755600-77770600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
29	chr15:77755800-77767800	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
30	chr15:77756200-77778400	Strong transcription	Fetal Thymus	thymus
31	chr15:77756800-77775800	Weak transcription	Pancreas	Pancrea
32	chr15:77757200-77767600	Weak transcription	Brain Angular Gyrus	brain
33	chr15:77757200-77770400	Weak transcription	Esophagus	oesophagus
34	chr15:77757200-77771200	Weak transcription	Colonic Mucosa	Colon
35	chr15:77757200-77774200	Weak transcription	NHLF	lung
36	chr15:77759200-77771600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
37	chr15:77759200-77776000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
38	chr15:77759400-77770200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
39	chr15:77759600-77769400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
40	chr15:77760200-77767800	Weak transcription	Fetal Brain Female	brain
41	chr15:77760200-77769600	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
42	chr15:77760400-77770400	Weak transcription	Brain Cingulate Gyrus	brain
43	chr15:77761600-77768400	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
44	chr15:77761600-77775800	Weak transcription	Pancreatic Islets	Pancreatic Islet
45	chr15:77762000-77769400	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
46	chr15:77762000-77775800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
47	chr15:77762400-77768200	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
48	chr15:77762400-77770200	Weak transcription	Fetal Stomach	stomach
49	chr15:77762400-77770600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
50	chr15:77762400-77770600	Weak transcription	Fetal Intestine Small	intestine

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