Variant report

Variant	rs16976776
Chromosome Location	chr15:56437146-56437147
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 35 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:33)

rs_ID	r²[population]
rs10444835	1.00[CEU][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11071244	0.89[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11071248	1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11071251	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11071256	0.94[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12437466	1.00[CEU][hapmap];1.00[JPT][hapmap]
rs12438262	1.00[CEU][hapmap];1.00[JPT][hapmap];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12438452	1.00[CEU][hapmap];1.00[JPT][hapmap];0.81[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12438525	1.00[CEU][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12438606	1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12438670	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12439033	0.91[AFR][1000 genomes];0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12439133	1.00[CEU][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12440495	1.00[CEU][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12440509	0.94[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12440898	1.00[CEU][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12441580	0.94[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12443028	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12443486	1.00[CEU][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16976721	0.89[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16976722	0.84[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16976737	1.00[CEU][hapmap];1.00[JPT][hapmap];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16976787	1.00[CEU][hapmap];1.00[JPT][hapmap];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16976793	1.00[CEU][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16976808	1.00[CEU][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs16976820	0.94[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16976824	1.00[CEU][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2718927	1.00[CEU][hapmap];1.00[JPT][hapmap];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28895323	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4310793	0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56798454	0.94[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7180561	0.82[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs7181011	0.91[EUR][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	nsv833018	chr15:56325799-56492535	Flanking Active TSS Weak transcription Enhancers ZNF genes & repeats Strong transcription Active TSS Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
2	nsv1045906	chr15:56333180-56473614	Strong transcription Weak transcription Enhancers ZNF genes & repeats Genic enhancers Active TSS Flanking Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:105 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:56388800-56437200	Weak transcription	Pancreas	Pancrea
2	chr15:56388800-56441600	Weak transcription	Lung	lung
3	chr15:56413400-56441600	Weak transcription	Spleen	Spleen
4	chr15:56416200-56437800	Weak transcription	H9 Cell Line	embryonic stem cell
5	chr15:56416200-56441600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
6	chr15:56419200-56438400	Weak transcription	Psoas Muscle	Psoas
7	chr15:56419600-56439000	Weak transcription	Muscle Satellite Cultured Cells	--
8	chr15:56421600-56437800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
9	chr15:56422200-56440400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
10	chr15:56424800-56453800	Weak transcription	Brain Substantia Nigra	brain
11	chr15:56427000-56439600	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
12	chr15:56429200-56437200	Weak transcription	Colon Smooth Muscle	Colon
13	chr15:56429400-56442600	Weak transcription	Brain Inferior Temporal Lobe	brain
14	chr15:56429600-56437800	Weak transcription	Small Intestine	intestine
15	chr15:56429600-56441200	Weak transcription	Placenta Amnion	Placenta Amnion
16	chr15:56431600-56442800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
17	chr15:56431800-56437800	Weak transcription	Ovary	ovary
18	chr15:56432000-56438000	Weak transcription	Right Ventricle	heart
19	chr15:56432400-56437800	Weak transcription	Fetal Heart	heart
20	chr15:56433600-56438400	Weak transcription	Fetal Intestine Small	intestine
21	chr15:56433800-56437800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
22	chr15:56433800-56464000	Weak transcription	Rectal Mucosa Donor 31	rectum
23	chr15:56435200-56437400	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
24	chr15:56435200-56437600	Weak transcription	Fetal Brain Female	brain
25	chr15:56435200-56437800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
26	chr15:56435200-56440000	Weak transcription	Fetal Muscle Trunk	muscle
27	chr15:56435200-56440600	Weak transcription	Fetal Lung	lung
28	chr15:56435200-56441800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
29	chr15:56435200-56442600	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
30	chr15:56435200-56458800	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
31	chr15:56435400-56437200	Weak transcription	H1 Cell Line	embryonic stem cell
32	chr15:56435400-56437200	Weak transcription	Primary T helper naive cells from peripheral blood	blood
33	chr15:56435400-56437200	Weak transcription	Adipose Nuclei	Adipose
34	chr15:56435400-56437200	Weak transcription	Hela-S3	cervix
35	chr15:56435400-56437200	Weak transcription	Osteobl	bone
36	chr15:56435400-56437800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
37	chr15:56435400-56437800	Weak transcription	Duodenum Smooth Muscle	Duodenum
38	chr15:56435400-56437800	Weak transcription	Left Ventricle	heart
39	chr15:56435400-56438000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
40	chr15:56435400-56439000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
41	chr15:56435400-56439000	Weak transcription	Fetal Kidney	kidney
42	chr15:56435400-56439000	Weak transcription	Skeletal Muscle Female	skeletal muscle
43	chr15:56435400-56439400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
44	chr15:56435400-56440000	Weak transcription	Skeletal Muscle Male	skeletal muscle
45	chr15:56435400-56440000	Weak transcription	A549	lung
46	chr15:56435400-56440000	Weak transcription	GM12878-XiMat	blood
47	chr15:56435400-56440200	Weak transcription	HMEC	breast
48	chr15:56435400-56440200	Weak transcription	HSMM	muscle
49	chr15:56435400-56440400	Weak transcription	Primary T cells from cord blood	blood
50	chr15:56435400-56440400	Weak transcription	Duodenum Mucosa	Duodenum

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links