Variant report

Variant	rs2899437
Chromosome Location	chr15:49730914-49730915
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr15:49725074..49727575-chr15:49729754..49732009,2	K562	blood:

Variant related genes	Relation type
ENSG00000140285	Chromatin interaction

Extended variants
information (count: 80 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:78)

rs_ID	r²[population]
rs10519229	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1055254	1.00[CHB][hapmap];0.88[CHD][hapmap];1.00[JPT][hapmap]
rs11070698	0.87[ASW][hapmap]
rs11070707	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs1114003	1.00[CHB][hapmap];0.88[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap]
rs12901416	1.00[CHB][hapmap]
rs12902107	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs12902794	1.00[CHB][hapmap]
rs1354919	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs1546424	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs1546425	1.00[CHB][hapmap]
rs1580996	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs1580997	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs16962169	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs16962171	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs16962174	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs16962175	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs16962177	1.00[CHB][hapmap];0.88[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap]
rs16962187	1.00[CEU][hapmap];1.00[CHB][hapmap];0.88[CHD][hapmap];1.00[GIH][hapmap];1.00[TSI][hapmap]
rs16962189	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs16962196	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs16962202	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs16962205	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs16962209	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs16962211	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs16962213	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs16962235	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs16962236	1.00[CHB][hapmap];0.88[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap]
rs16962237	1.00[CEU][hapmap];1.00[CHB][hapmap];0.88[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap]
rs16962238	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs16962244	1.00[CHB][hapmap];0.88[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap]
rs16962256	1.00[CHB][hapmap];0.88[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap]
rs16962257	1.00[CHB][hapmap];1.00[GIH][hapmap]
rs16962259	1.00[CHB][hapmap];0.88[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap]
rs16962262	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs16962273	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs16962274	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs16962276	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs16962288	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs16962296	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs16962307	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs16962308	1.00[CEU][hapmap];1.00[CHB][hapmap];0.88[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap]
rs16962314	1.00[CHB][hapmap];0.88[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap]
rs16962327	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs16962331	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs16962416	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[GIH][hapmap];1.00[TSI][hapmap];1.00[EUR][1000 genomes]
rs16962425	1.00[EUR][1000 genomes]
rs16962436	0.80[YRI][hapmap]
rs17396612	1.00[CHB][hapmap];0.88[CHD][hapmap];1.00[JPT][hapmap]
rs17476940	1.00[CHB][hapmap];0.88[CHD][hapmap];1.00[JPT][hapmap]
rs1874614	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs1904316	0.80[YRI][hapmap]
rs2059935	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs2078024	1.00[CHB][hapmap];0.87[CHD][hapmap];1.00[JPT][hapmap]
rs2127243	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs2169931	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs2279192	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs2413943	0.81[ASW][hapmap];0.80[YRI][hapmap]
rs2413944	0.81[ASW][hapmap];0.80[YRI][hapmap]
rs2413947	0.82[ASN][1000 genomes]
rs2413958	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs2413963	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs4332689	0.80[YRI][hapmap]
rs4362337	1.00[JPT][hapmap]
rs4396481	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs4774539	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs7162373	0.80[YRI][hapmap]
rs7168633	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs7173759	1.00[CEU][hapmap];1.00[CHB][hapmap];0.88[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap]
rs7178101	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs73398258	0.89[AFR][1000 genomes];0.86[EUR][1000 genomes]
rs73398263	0.84[AFR][1000 genomes]
rs8029506	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs8031680	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];0.98[MKK][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs8040436	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs967892	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs967893	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs9920722	0.86[YRI][hapmap]

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:34 , 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	chr15:49725400-49731000	Weak transcription	Brain Substantia Nigra	brain
7	chr15:49725400-49733800	Enhancers	Rectal Smooth Muscle	rectum
8	chr15:49726200-49732800	Enhancers	Fetal Heart	heart
9	chr15:49726800-49731200	Weak transcription	Ovary	ovary
10	chr15:49728200-49732400	Enhancers	Fetal Stomach	stomach
11	chr15:49728800-49731200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
12	chr15:49729000-49731200	Enhancers	Osteobl	bone
13	chr15:49729000-49731400	Weak transcription	Fetal Kidney	kidney
14	chr15:49729000-49733200	Weak transcription	HSMMtube	muscle
15	chr15:49729200-49731000	Weak transcription	Fetal Lung	lung
16	chr15:49729200-49731200	Weak transcription	HSMM	muscle
17	chr15:49729200-49731400	Weak transcription	Muscle Satellite Cultured Cells	--
18	chr15:49729800-49731200	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
19	chr15:49729800-49731200	Enhancers	Stomach Smooth Muscle	stomach
20	chr15:49730000-49731600	Weak transcription	NH-A	brain
21	chr15:49730000-49732400	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
22	chr15:49730000-49732400	Enhancers	NHDF-Ad	bronchial
23	chr15:49730000-49733800	Enhancers	Primary hematopoietic stem cells	blood
24	chr15:49730200-49731200	Weak transcription	Adipose Nuclei	Adipose
25	chr15:49730200-49731200	Weak transcription	Duodenum Smooth Muscle	Duodenum
26	chr15:49730400-49731200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
27	chr15:49730400-49744600	Weak transcription	NHLF	lung
28	chr15:49730600-49731000	Weak transcription	Small Intestine	intestine
29	chr15:49730600-49731400	Enhancers	GM12878-XiMat	blood
30	chr15:49730800-49731000	Enhancers	Monocytes-CD14+_RO01746	blood
31	chr15:49730800-49731200	Flanking Active TSS	Primary hematopoietic stem cells short term culture	blood
32	chr15:49730800-49731200	Enhancers	Colon Smooth Muscle	Colon
33	chr15:49730800-49732000	Enhancers	Primary neutrophils fromperipheralblood	blood
34	chr15:49730800-49732600	Flanking Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived

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