Variant report

Variant	rs12592296
Chromosome Location	chr15:49728928-49728929
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 40 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:38)

rs_ID	r²[population]
rs10519227	1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs11070698	1.00[CEU][hapmap]
rs11070711	1.00[CEU][hapmap]
rs12591134	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs12591799	1.00[CEU][hapmap];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]
rs12592177	1.00[CEU][hapmap];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]
rs12592277	0.90[ASN][1000 genomes]
rs12593068	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]
rs12593119	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs12594154	1.00[CEU][hapmap];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]
rs12594827	1.00[CEU][hapmap];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]
rs12595497	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];0.90[ASN][1000 genomes]
rs12595701	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12898461	1.00[YRI][hapmap]
rs12898877	1.00[YRI][hapmap]
rs12903992	1.00[YRI][hapmap]
rs12916078	1.00[YRI][hapmap]
rs1354919	1.00[CEU][hapmap]
rs1580996	1.00[CEU][hapmap]
rs1580997	1.00[CEU][hapmap]
rs16962418	1.00[YRI][hapmap]
rs16962419	1.00[YRI][hapmap]
rs17477923	1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs17479205	0.90[ASN][1000 genomes]
rs17479289	0.90[ASN][1000 genomes]
rs1874614	1.00[CEU][hapmap];0.81[EUR][1000 genomes]
rs1961692	0.86[ASN][1000 genomes]
rs34635038	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs3809495	1.00[CEU][hapmap];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];0.90[ASN][1000 genomes]
rs4338740	1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs4396481	1.00[CEU][hapmap]
rs56199525	1.00[AFR][1000 genomes];0.88[EUR][1000 genomes]
rs56875838	0.86[ASN][1000 genomes]
rs62012204	1.00[EUR][1000 genomes]
rs7168316	1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs7176697	1.00[CHB][hapmap]
rs73398264	0.90[ASN][1000 genomes]
rs73400205	0.82[ASN][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	nsv1039368	chr15:49566094-49764066	Weak transcription ZNF genes & repeats Enhancers Strong transcription Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
2	nsv833002	chr15:49621400-49781799	Enhancers Weak transcription Active TSS Flanking Active TSS Strong transcription Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:28 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:49716200-49732200	Transcr. at gene 5' and 3'	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
2	chr15:49716400-49737200	Transcr. at gene 5' and 3'	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
3	chr15:49718000-49731200	Weak transcription	Left Ventricle	heart
4	chr15:49719400-49731200	Weak transcription	Fetal Muscle Leg	muscle
5	chr15:49721000-49736200	Weak transcription	Right Ventricle	heart
6	chr15:49721800-49730000	Weak transcription	Primary hematopoietic stem cells	blood
7	chr15:49725400-49731000	Weak transcription	Brain Substantia Nigra	brain
8	chr15:49725400-49733800	Enhancers	Rectal Smooth Muscle	rectum
9	chr15:49726200-49732800	Enhancers	Fetal Heart	heart
10	chr15:49726400-49729400	Weak transcription	Duodenum Smooth Muscle	Duodenum
11	chr15:49726600-49729200	Enhancers	HSMM	muscle
12	chr15:49726800-49731200	Weak transcription	Ovary	ovary
13	chr15:49727000-49730400	Enhancers	Colon Smooth Muscle	Colon
14	chr15:49727200-49729200	Enhancers	Fetal Lung	lung
15	chr15:49727400-49729200	Enhancers	Muscle Satellite Cultured Cells	--
16	chr15:49727800-49729000	Enhancers	HSMMtube	muscle
17	chr15:49728000-49729400	Weak transcription	NH-A	brain
18	chr15:49728200-49729800	Flanking Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
19	chr15:49728200-49732400	Enhancers	Fetal Stomach	stomach
20	chr15:49728400-49730000	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
21	chr15:49728400-49730400	Enhancers	NHLF	lung
22	chr15:49728600-49729000	Active TSS	Stomach Smooth Muscle	stomach
23	chr15:49728600-49729200	Enhancers	NHDF-Ad	bronchial
24	chr15:49728800-49729000	Enhancers	Fetal Kidney	kidney
25	chr15:49728800-49729000	Flanking Active TSS	Osteobl	bone
26	chr15:49728800-49729200	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
27	chr15:49728800-49729200	Flanking Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
28	chr15:49728800-49731200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--

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