Variant report

Variant	rs10851639
Chromosome Location	chr15:58897874-58897875
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr15:58890495..58893590-chr15:58895773..58898243,3	K562	blood:
2	chr15:58623131..58625818-chr15:58896837..58898652,2	MCF-7	breast:
3	chr15:58892060..58893645-chr15:58896803..58898412,2	MCF-7	breast:
4	chr15:58894443..58897022-chr15:58897229..58899718,3	K562	blood:
5	chr15:58897720..58899751-chr15:59040032..59042523,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000137845	Chromatin interaction
ENSG00000128918	Chromatin interaction
ENSG00000239100	Chromatin interaction

Extended variants
information (count: 60 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:57)

rs_ID	r²[population]
rs11071392	0.80[ASN][1000 genomes]
rs11071396	0.81[CHB][hapmap]
rs12438114	0.84[CHB][hapmap]
rs12438487	0.82[JPT][hapmap];0.82[ASN][1000 genomes]
rs12438810	0.80[ASN][1000 genomes]
rs12439189	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.93[CHD][hapmap];0.97[GIH][hapmap];1.00[JPT][hapmap];0.89[LWK][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.94[YRI][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12591291	0.84[ASN][1000 genomes]
rs12591543	0.81[ASN][1000 genomes]
rs12592750	0.82[ASN][1000 genomes]
rs12905173	0.82[ASN][1000 genomes]
rs12906705	0.83[JPT][hapmap]
rs12908449	0.83[ASN][1000 genomes]
rs12912286	0.80[ASN][1000 genomes]
rs12915950	0.80[ASN][1000 genomes]
rs1365772	1.00[CHB][hapmap];0.95[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.81[MEX][hapmap];1.00[ASN][1000 genomes]
rs16940587	0.81[JPT][hapmap];0.84[ASN][1000 genomes]
rs16940589	0.83[JPT][hapmap];0.84[ASN][1000 genomes]
rs16940651	0.82[JPT][hapmap];0.81[ASN][1000 genomes]
rs1820548	0.84[ASN][1000 genomes]
rs1869133	0.91[CHB][hapmap];0.93[CHD][hapmap];1.00[GIH][hapmap];0.95[JPT][hapmap];0.94[ASN][1000 genomes]
rs1869135	1.00[CHB][hapmap];0.93[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.99[ASN][1000 genomes]
rs2081703	0.95[CHB][hapmap];0.93[CHD][hapmap];1.00[GIH][hapmap];0.95[JPT][hapmap];0.95[MEX][hapmap];0.86[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs2303532	0.81[ASN][1000 genomes]
rs2305421	0.82[ASN][1000 genomes]
rs28417700	0.83[ASN][1000 genomes]
rs28457680	0.83[ASN][1000 genomes]
rs28573205	0.82[ASN][1000 genomes]
rs28584993	0.83[ASN][1000 genomes]
rs28600144	0.84[ASN][1000 genomes]
rs28639679	0.80[ASN][1000 genomes]
rs28678478	0.83[ASN][1000 genomes]
rs3764196	1.00[CHB][hapmap];0.90[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.81[MEX][hapmap];0.99[ASN][1000 genomes]
rs394845	1.00[LWK][hapmap];1.00[YRI][hapmap]
rs4774309	1.00[YRI][hapmap];0.87[AFR][1000 genomes]
rs4775084	1.00[ASN][1000 genomes]
rs6494030	0.80[ASN][1000 genomes]
rs6494031	0.81[ASN][1000 genomes]
rs694335	0.80[LWK][hapmap];0.81[YRI][hapmap]
rs7162952	0.90[ASN][1000 genomes]
rs7163733	0.83[JPT][hapmap]
rs7164620	0.84[ASN][1000 genomes]
rs7165035	0.84[ASN][1000 genomes]
rs7165259	1.00[CHB][hapmap];1.00[JPT][hapmap];0.99[ASN][1000 genomes]
rs7166076	0.83[JPT][hapmap];0.84[ASN][1000 genomes]
rs7166325	0.83[JPT][hapmap]
rs7174414	0.82[JPT][hapmap];0.84[ASN][1000 genomes]
rs7175421	0.82[MEX][hapmap]
rs7180550	0.84[ASN][1000 genomes]
rs7182060	0.92[LWK][hapmap];1.00[YRI][hapmap]
rs8033565	0.82[ASN][1000 genomes]
rs8036005	0.84[ASN][1000 genomes]
rs8039791	0.81[JPT][hapmap];0.84[ASN][1000 genomes]
rs9635351	0.80[ASN][1000 genomes]
rs9744518	0.80[ASN][1000 genomes]
rs9920042	0.84[ASN][1000 genomes]
rs9920720	0.83[JPT][hapmap]
rs9921024	0.82[JPT][hapmap];0.84[ASN][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	nsv1051058	chr15:58519922-59092530	Strong transcription Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	50 gene(s)	inside rSNPs	diseases
2	nsv542401	chr15:58519922-59092530	Strong transcription Weak transcription Active TSS Flanking Active TSS Enhancers Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	50 gene(s)	inside rSNPs	diseases
3	nsv1551	chr15:58891639-58936580	Strong transcription Weak transcription Genic enhancers Active TSS Flanking Active TSS Enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:119 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:58878000-58898400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
2	chr15:58878000-58900000	Weak transcription	Primary T helper naive cells from peripheral blood	blood
3	chr15:58878000-58900000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
4	chr15:58878400-58900200	Weak transcription	Brain Substantia Nigra	brain
5	chr15:58878600-58900200	Weak transcription	NHLF	lung
6	chr15:58878800-58904400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
7	chr15:58880200-58904600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
8	chr15:58880600-58920600	Weak transcription	Skeletal Muscle Male	skeletal muscle
9	chr15:58882600-58904000	Weak transcription	Gastric	stomach
10	chr15:58882600-58907600	Weak transcription	Placenta Amnion	Placenta Amnion
11	chr15:58883000-58901800	Weak transcription	HUVEC	blood vessel
12	chr15:58883200-58900400	Weak transcription	Fetal Heart	heart
13	chr15:58883200-58904600	Strong transcription	HSMM	muscle
14	chr15:58883400-58900000	Weak transcription	Pancreatic Islets	Pancreatic Islet
15	chr15:58884400-58902600	Weak transcription	Cortex derived primary cultured neurospheres	brain
16	chr15:58885800-58906800	Weak transcription	Fetal Brain Male	brain
17	chr15:58886400-58899800	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
18	chr15:58887200-58906600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
19	chr15:58887400-58898200	Weak transcription	Brain Angular Gyrus	brain
20	chr15:58887800-58905200	Weak transcription	Brain Germinal Matrix	brain
21	chr15:58888000-58906200	Weak transcription	Brain Inferior Temporal Lobe	brain
22	chr15:58888400-58900400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
23	chr15:58888400-58920000	Weak transcription	Rectal Smooth Muscle	rectum
24	chr15:58888600-58899600	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
25	chr15:58889000-58900200	Weak transcription	Right Ventricle	heart
26	chr15:58889200-58900400	Weak transcription	NH-A	brain
27	chr15:58889600-58902000	Weak transcription	HMEC	breast
28	chr15:58889600-58904600	Weak transcription	Colonic Mucosa	Colon
29	chr15:58889600-58905200	Weak transcription	Fetal Brain Female	brain
30	chr15:58889600-58919800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
31	chr15:58889800-58899200	Weak transcription	Hela-S3	cervix
32	chr15:58889800-58901400	Weak transcription	Duodenum Mucosa	Duodenum
33	chr15:58889800-58918800	Weak transcription	Osteobl	bone
34	chr15:58889800-58921000	Weak transcription	Ovary	ovary
35	chr15:58890000-58901400	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
36	chr15:58890000-58904400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
37	chr15:58890000-58906200	Weak transcription	Small Intestine	intestine
38	chr15:58890800-58905200	Weak transcription	Brain Anterior Caudate	brain
39	chr15:58891000-58900000	Weak transcription	Primary neutrophils fromperipheralblood	blood
40	chr15:58891000-58900400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
41	chr15:58891000-58906800	Strong transcription	Monocytes-CD14+_RO01746	blood
42	chr15:58891200-58898600	Weak transcription	HUES48 Cell Line	embryonic stem cell
43	chr15:58891200-58898800	Weak transcription	HUES6 Cell Line	embryonic stem cell
44	chr15:58891200-58899000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
45	chr15:58891400-58959600	Weak transcription	H1 Cell Line	embryonic stem cell
46	chr15:58891800-58898800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
47	chr15:58892000-58902200	Weak transcription	A549	lung
48	chr15:58893000-58899200	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
49	chr15:58893200-58898800	Strong transcription	Thymus	Thymus
50	chr15:58893200-58900000	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived

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