Variant report

Variant	rs1743256
Chromosome Location	chr6:118641313-118641314
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:118640782..118642845-chr6:119024571..119027224,2	K562	blood:

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

rSNPs within LD-proxies of this variant (count:74)

rs_ID	r²[population]
rs10484289	0.82[CHB][hapmap]
rs10499086	1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs1319987	0.82[CHB][hapmap]
rs1319988	0.82[CHB][hapmap]
rs1321985	0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1413629	0.99[EUR][1000 genomes]
rs1413630	0.95[AFR][1000 genomes];0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1413631	0.86[EUR][1000 genomes]
rs1614226	0.81[AFR][1000 genomes];0.84[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs1622849	0.87[AFR][1000 genomes];0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1626650	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1630266	1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs1630880	0.88[EUR][1000 genomes]
rs1690648	0.87[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1690650	0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1690652	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1690653	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1690654	0.95[AFR][1000 genomes];0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1690655	0.95[AFR][1000 genomes];0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1690656	0.86[EUR][1000 genomes]
rs1690657	0.95[AFR][1000 genomes];0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1690658	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1690664	1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs1690666	0.86[EUR][1000 genomes]
rs1690667	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1690669	0.85[EUR][1000 genomes]
rs1690670	0.99[EUR][1000 genomes]
rs1690671	0.88[EUR][1000 genomes]
rs17079881	1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs17422275	1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs1743242	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1743244	0.87[AFR][1000 genomes];0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1743245	0.82[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1743247	0.95[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1743248	0.86[EUR][1000 genomes]
rs1743249	0.86[EUR][1000 genomes]
rs1743250	0.95[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1743251	0.95[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs1743252	0.86[EUR][1000 genomes]
rs1743254	0.84[EUR][1000 genomes]
rs1743257	0.93[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1743258	1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs1743259	1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs1743261	0.99[EUR][1000 genomes]
rs1761617	0.88[EUR][1000 genomes]
rs1761620	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1761622	0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1761624	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1761625	0.86[EUR][1000 genomes]
rs1761628	0.88[EUR][1000 genomes]
rs1761629	0.88[EUR][1000 genomes]
rs1761630	0.88[EUR][1000 genomes]
rs1889468	1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs2483916	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2483917	0.86[EUR][1000 genomes]
rs2483918	0.86[EUR][1000 genomes]
rs2501472	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs25422	0.82[CHB][hapmap]
rs3734345	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3851206	1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs3900941	0.88[ASN][1000 genomes]
rs3901856	1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs3904613	1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs62421485	0.88[ASN][1000 genomes]
rs62421486	0.88[ASN][1000 genomes]
rs62421489	0.88[ASN][1000 genomes]
rs6924560	1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs724868	0.82[CHB][hapmap]
rs7453860	1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs9372498	0.88[ASN][1000 genomes]
rs937275	0.93[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs937276	0.88[EUR][1000 genomes]
rs9489407	0.82[CHB][hapmap]
rs9489409	0.82[CHB][hapmap]

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	nsv530526	chr6:118027339-118718476	Weak transcription Enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
2	nsv532051	chr6:118551027-119044197	Active TSS Enhancers Weak transcription Strong transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
3	nsv1020463	chr6:118593028-119146363	Enhancers Weak transcription Flanking Active TSS Strong transcription Genic enhancers ZNF genes & repeats Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
4	nsv604554	chr6:118631282-118716318	Enhancers Flanking Active TSS ZNF genes & repeats Active TSS Weak transcription Strong transcription Genic enhancers	Chromatin interactive region	n/a	inside rSNPs	diseases
5	nsv830787	chr6:118631902-118805106	Weak transcription Flanking Active TSS Strong transcription Enhancers Active TSS ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
6	nsv1025403	chr6:118635123-119122551	Weak transcription Enhancers Active TSS Strong transcription ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 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	chr6:118634400-118642600	Enhancers	Colon Smooth Muscle	Colon
2	chr6:118635400-118642000	Weak transcription	Pancreas	Pancrea
3	chr6:118635400-118646400	Weak transcription	Right Ventricle	heart
4	chr6:118636000-118641400	Enhancers	Fetal Heart	heart
5	chr6:118637000-118642400	Enhancers	Duodenum Smooth Muscle	Duodenum
6	chr6:118637400-118646400	Weak transcription	Left Ventricle	heart
7	chr6:118638200-118643000	Enhancers	Rectal Smooth Muscle	rectum
8	chr6:118638400-118643400	Enhancers	Cortex derived primary cultured neurospheres	brain
9	chr6:118638800-118642400	Enhancers	Brain Anterior Caudate	brain
10	chr6:118639000-118642600	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
11	chr6:118639200-118642400	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
12	chr6:118639200-118645400	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
13	chr6:118639400-118642000	Weak transcription	NHDF-Ad	bronchial
14	chr6:118639400-118643600	Enhancers	Brain Germinal Matrix	brain
15	chr6:118640200-118641800	Weak transcription	Fetal Lung	lung
16	chr6:118640600-118641400	Enhancers	Aorta	Aorta
17	chr6:118640600-118641400	Enhancers	Psoas Muscle	Psoas
18	chr6:118640600-118641800	Enhancers	Brain Hippocampus Middle	brain
19	chr6:118640600-118642400	Enhancers	Brain Substantia Nigra	brain
20	chr6:118640600-118642600	Enhancers	Brain Cingulate Gyrus	brain
21	chr6:118640600-118643200	Enhancers	Skeletal Muscle Female	skeletal muscle
22	chr6:118640800-118641400	Enhancers	Fetal Brain Female	brain
23	chr6:118640800-118643200	Enhancers	Skeletal Muscle Male	skeletal muscle
24	chr6:118641000-118641400	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
25	chr6:118641000-118641400	Enhancers	Brain Angular Gyrus	brain
26	chr6:118641000-118641800	Enhancers	Right Atrium	heart
27	chr6:118641000-118641800	Enhancers	Stomach Smooth Muscle	stomach
28	chr6:118641000-118642200	Enhancers	Brain Inferior Temporal Lobe	brain
29	chr6:118641000-118642200	Enhancers	NHLF	lung
30	chr6:118641000-118642400	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
31	chr6:118641000-118642400	Weak transcription	Fetal Stomach	stomach
32	chr6:118641000-118642800	Weak transcription	Ovary	ovary
33	chr6:118641200-118641400	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
34	chr6:118641200-118641400	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links