Variant report

Variant	rs56894749
Chromosome Location	chr15:43092205-43092206
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 59 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:53)

rs_ID	r²[population]
rs10220713	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10220718	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10220726	1.00[EUR][1000 genomes]
rs10220875	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10438302	0.96[ASN][1000 genomes]
rs11070381	0.96[ASN][1000 genomes]
rs11070384	1.00[EUR][1000 genomes]
rs11504666	1.00[EUR][1000 genomes]
rs1317628	1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs13379871	1.00[EUR][1000 genomes]
rs13380157	1.00[EUR][1000 genomes]
rs13380212	1.00[EUR][1000 genomes]
rs13380301	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs16956991	1.00[EUR][1000 genomes]
rs16957002	1.00[EUR][1000 genomes]
rs16957125	1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs16957138	1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs16957164	1.00[EUR][1000 genomes]
rs16957178	0.95[AFR][1000 genomes];0.91[ASN][1000 genomes]
rs16957185	1.00[EUR][1000 genomes]
rs16957187	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16957201	1.00[EUR][1000 genomes]
rs16957224	0.89[ASN][1000 genomes]
rs16957292	1.00[EUR][1000 genomes]
rs16973395	1.00[EUR][1000 genomes]
rs1877137	1.00[EUR][1000 genomes]
rs1877138	1.00[EUR][1000 genomes]
rs2054388	1.00[EUR][1000 genomes]
rs28535059	1.00[EUR][1000 genomes]
rs34348991	0.87[ASN][1000 genomes]
rs34436896	1.00[EUR][1000 genomes]
rs35584827	1.00[EUR][1000 genomes]
rs57880396	1.00[EUR][1000 genomes]
rs58506324	0.94[ASN][1000 genomes]
rs58754188	0.96[ASN][1000 genomes]
rs58756153	0.96[ASN][1000 genomes]
rs59276064	1.00[EUR][1000 genomes]
rs60752181	0.89[ASN][1000 genomes]
rs60789298	1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs60807675	0.87[ASN][1000 genomes]
rs60832391	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs60881935	1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs61682243	0.88[AFR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7164041	1.00[EUR][1000 genomes]
rs7165249	1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7174661	1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7175062	1.00[EUR][1000 genomes]
rs7177501	0.86[ASN][1000 genomes]
rs8031111	1.00[EUR][1000 genomes]
rs8032994	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8039438	0.96[ASN][1000 genomes]
rs9806161	1.00[EUR][1000 genomes]
rs9806313	1.00[EUR][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	nsv528725	chr15:42755555-43104406	Weak transcription Active TSS Strong transcription Enhancers Transcr. at gene 5' and 3' Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	50 gene(s)	inside rSNPs	diseases
2	nsv427959	chr15:42931181-43207353	Weak transcription Flanking Active TSS Strong transcription Enhancers Active TSS Genic enhancers ZNF genes & repeats 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	10 gene(s)	inside rSNPs	diseases
3	nsv977054	chr15:43015821-43171355	Strong transcription Weak transcription ZNF genes & repeats Genic enhancers Enhancers Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
4	nsv1050128	chr15:43056145-43262736	Active TSS Weak transcription Strong transcription Flanking Active TSS Enhancers Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
5	nsv542368	chr15:43056145-43262736	Flanking Active TSS Weak transcription Strong transcription Active TSS Enhancers ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
6	nsv525461	chr15:43062548-43482127	Enhancers Flanking Active TSS Weak transcription Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	32 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:111 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:43030000-43093600	Weak transcription	Colonic Mucosa	Colon
2	chr15:43053600-43112200	Weak transcription	Rectal Smooth Muscle	rectum
3	chr15:43054800-43146000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
4	chr15:43056800-43116800	Weak transcription	HepG2	liver
5	chr15:43057600-43107000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
6	chr15:43060800-43122200	Weak transcription	GM12878-XiMat	blood
7	chr15:43063000-43093000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
8	chr15:43063400-43093600	Weak transcription	Esophagus	oesophagus
9	chr15:43063400-43136200	Weak transcription	Psoas Muscle	Psoas
10	chr15:43064000-43114200	Weak transcription	Fetal Kidney	kidney
11	chr15:43064800-43150800	Weak transcription	HSMM	muscle
12	chr15:43066400-43095600	Weak transcription	H9 Cell Line	embryonic stem cell
13	chr15:43066600-43097600	Weak transcription	Primary T helper naive cells from peripheral blood	blood
14	chr15:43067400-43147200	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
15	chr15:43067600-43092800	Weak transcription	Brain Germinal Matrix	brain
16	chr15:43067800-43093000	Weak transcription	Fetal Brain Female	brain
17	chr15:43067800-43095200	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
18	chr15:43068000-43093000	Weak transcription	Spleen	Spleen
19	chr15:43068400-43093000	Weak transcription	Aorta	Aorta
20	chr15:43068400-43093600	Weak transcription	Rectal Mucosa Donor 31	rectum
21	chr15:43068800-43092600	Weak transcription	Brain Hippocampus Middle	brain
22	chr15:43069000-43092800	Weak transcription	Fetal Muscle Trunk	muscle
23	chr15:43069000-43093400	Weak transcription	Duodenum Mucosa	Duodenum
24	chr15:43075200-43092600	Weak transcription	Fetal Heart	heart
25	chr15:43075200-43093600	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
26	chr15:43075200-43143800	Weak transcription	HUES48 Cell Line	embryonic stem cell
27	chr15:43075400-43135800	Weak transcription	HSMMtube	muscle
28	chr15:43075600-43093000	Weak transcription	Brain Cingulate Gyrus	brain
29	chr15:43075600-43093400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
30	chr15:43075600-43093600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
31	chr15:43075600-43093600	Weak transcription	Fetal Lung	lung
32	chr15:43075600-43093600	Weak transcription	Rectal Mucosa Donor 29	rectum
33	chr15:43075600-43150800	Weak transcription	Colon Smooth Muscle	Colon
34	chr15:43075800-43092600	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
35	chr15:43075800-43093000	Weak transcription	Primary neutrophils fromperipheralblood	blood
36	chr15:43075800-43093000	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
37	chr15:43075800-43093000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
38	chr15:43075800-43093000	Weak transcription	Brain Inferior Temporal Lobe	brain
39	chr15:43075800-43093000	Weak transcription	Left Ventricle	heart
40	chr15:43075800-43093000	Weak transcription	Lung	lung
41	chr15:43075800-43093000	Weak transcription	Sigmoid Colon	Sigmoid Colon
42	chr15:43075800-43093200	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
43	chr15:43075800-43093200	Weak transcription	Primary B cells from peripheral blood	blood
44	chr15:43075800-43093200	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
45	chr15:43075800-43093200	Weak transcription	Right Ventricle	heart
46	chr15:43075800-43093200	Weak transcription	Skeletal Muscle Male	skeletal muscle
47	chr15:43075800-43093400	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
48	chr15:43075800-43093400	Weak transcription	Ovary	ovary
49	chr15:43075800-43093600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
50	chr15:43075800-43093600	Weak transcription	Brain Substantia Nigra	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links