Variant report

Variant	rs380082
Chromosome Location	chr2:40477658-40477659
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 95 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:87)

rs_ID	r²[population]
rs105288	0.92[GIH][hapmap];1.00[JPT][hapmap]
rs13425134	0.81[MEX][hapmap]
rs1641452	0.80[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs1641458	1.00[JPT][hapmap]
rs1651356	0.80[EUR][1000 genomes]
rs34971853	0.82[AMR][1000 genomes];0.96[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs36162999	0.80[AMR][1000 genomes];0.92[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs36184451	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs366578	0.82[CEU][hapmap];0.90[CHB][hapmap];0.95[CHD][hapmap];0.93[GIH][hapmap];1.00[JPT][hapmap];0.85[LWK][hapmap];0.87[MEX][hapmap];0.83[MKK][hapmap];0.94[TSI][hapmap];0.83[AMR][1000 genomes];0.90[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs368642	0.82[CEU][hapmap];1.00[JPT][hapmap]
rs369140	1.00[JPT][hapmap]
rs371909	0.82[GIH][hapmap];1.00[JPT][hapmap];0.83[ASN][1000 genomes]
rs372052	1.00[JPT][hapmap]
rs373606	0.90[JPT][hapmap]
rs374159	0.83[EUR][1000 genomes]
rs3749056	0.90[CHB][hapmap];1.00[JPT][hapmap];0.94[TSI][hapmap];0.95[ASN][1000 genomes]
rs379410	0.82[CEU][hapmap];0.93[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.83[TSI][hapmap]
rs379859	0.86[AFR][1000 genomes];0.91[AMR][1000 genomes];0.89[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs380975	1.00[JPT][hapmap]
rs383073	0.84[AFR][1000 genomes];0.91[AMR][1000 genomes];0.90[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs384511	0.82[CEU][hapmap];1.00[JPT][hapmap]
rs384994	0.85[ASW][hapmap];0.82[CEU][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.87[MEX][hapmap];0.83[TSI][hapmap];1.00[YRI][hapmap]
rs385561	1.00[JPT][hapmap]
rs389109	1.00[JPT][hapmap]
rs389992	0.82[CEU][hapmap];1.00[JPT][hapmap];0.91[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs391631	1.00[JPT][hapmap]
rs391984	1.00[JPT][hapmap];0.87[ASN][1000 genomes]
rs393711	1.00[JPT][hapmap]
rs394112	1.00[ASW][hapmap];0.82[CEU][hapmap];0.90[CHB][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.91[LWK][hapmap];0.94[MEX][hapmap];0.86[MKK][hapmap];1.00[TSI][hapmap];0.91[YRI][hapmap];0.98[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs394540	0.82[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap];0.83[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs398175	0.82[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs399061	0.86[GIH][hapmap];1.00[JPT][hapmap];0.81[MEX][hapmap];0.80[YRI][hapmap]
rs401815	0.85[ASW][hapmap];0.82[CEU][hapmap];0.80[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.94[MEX][hapmap];0.81[MKK][hapmap];0.89[TSI][hapmap];0.91[YRI][hapmap];0.86[AFR][1000 genomes];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs402307	0.82[CEU][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.83[EUR][1000 genomes]
rs405884	0.82[CEU][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.85[LWK][hapmap];0.87[MEX][hapmap];0.81[MKK][hapmap];1.00[TSI][hapmap];0.83[AMR][1000 genomes];0.94[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs406222	0.82[CEU][hapmap];0.90[CHB][hapmap];0.95[CHD][hapmap];0.93[GIH][hapmap];1.00[JPT][hapmap];0.88[LWK][hapmap];1.00[MEX][hapmap];0.88[MKK][hapmap];1.00[TSI][hapmap];0.83[YRI][hapmap];0.85[AMR][1000 genomes];0.90[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs406736	0.85[EUR][1000 genomes]
rs406880	1.00[JPT][hapmap]
rs407267	0.82[CEU][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.81[EUR][1000 genomes]
rs407388	1.00[ASW][hapmap];0.82[CEU][hapmap];0.90[CHB][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.91[LWK][hapmap];0.94[MEX][hapmap];0.86[MKK][hapmap];1.00[TSI][hapmap];0.91[YRI][hapmap];0.98[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs407889	1.00[JPT][hapmap]
rs408009	1.00[JPT][hapmap]
rs410480	0.84[EUR][1000 genomes]
rs413711	1.00[JPT][hapmap]
rs415695	0.89[CHB][hapmap];0.82[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs417464	0.82[CEU][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.83[EUR][1000 genomes]
rs417591	1.00[JPT][hapmap]
rs417873	0.82[CEU][hapmap];0.86[GIH][hapmap];1.00[JPT][hapmap];0.94[MEX][hapmap];0.83[TSI][hapmap]
rs418780	0.90[JPT][hapmap]
rs421870	1.00[JPT][hapmap]
rs426295	1.00[JPT][hapmap]
rs427632	0.82[CEU][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.80[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs428738	0.82[CEU][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs429227	0.80[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs430314	0.82[CEU][hapmap];0.86[GIH][hapmap];1.00[JPT][hapmap];0.81[MEX][hapmap];0.83[TSI][hapmap]
rs430473	0.84[EUR][1000 genomes]
rs432142	0.80[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs432769	0.89[JPT][hapmap];0.87[ASN][1000 genomes]
rs434082	0.90[CHB][hapmap];1.00[JPT][hapmap];0.94[TSI][hapmap];0.96[ASN][1000 genomes]
rs436010	0.82[CEU][hapmap];1.00[JPT][hapmap];0.91[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs439960	0.82[CEU][hapmap];1.00[JPT][hapmap]
rs440155	0.82[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap];0.97[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs441196	1.00[JPT][hapmap]
rs441413	0.90[JPT][hapmap]
rs441593	1.00[JPT][hapmap]
rs442586	1.00[JPT][hapmap];0.83[ASN][1000 genomes]
rs443236	0.82[CEU][hapmap];1.00[JPT][hapmap];0.95[YRI][hapmap];0.86[AFR][1000 genomes];0.89[AMR][1000 genomes];0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs450116	0.82[CEU][hapmap];1.00[JPT][hapmap];0.87[YRI][hapmap];0.84[EUR][1000 genomes]
rs450823	1.00[CEU][hapmap];1.00[JPT][hapmap];0.91[YRI][hapmap];0.86[AFR][1000 genomes];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs451074	0.81[JPT][hapmap]
rs451158	0.90[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.86[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs451811	0.90[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.87[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs452138	0.85[ASW][hapmap];0.82[CEU][hapmap];0.93[GIH][hapmap];1.00[JPT][hapmap];0.87[MEX][hapmap];1.00[YRI][hapmap]
rs452369	0.81[MEX][hapmap]
rs4952596	0.86[AMR][1000 genomes];0.90[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs505473	0.90[CHB][hapmap];0.87[GIH][hapmap];1.00[JPT][hapmap];0.88[MEX][hapmap];0.99[ASN][1000 genomes]
rs507705	0.81[MEX][hapmap]
rs581477	0.82[CEU][hapmap];0.86[GIH][hapmap];1.00[JPT][hapmap];0.94[MEX][hapmap];0.83[TSI][hapmap]
rs581568	0.82[CEU][hapmap];0.86[GIH][hapmap];1.00[JPT][hapmap];0.94[MEX][hapmap];0.83[TSI][hapmap]
rs588179	0.81[ASN][1000 genomes]
rs615449	0.80[CHD][hapmap];0.82[GIH][hapmap];1.00[JPT][hapmap];0.83[ASN][1000 genomes]
rs666362	0.82[CEU][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.94[MEX][hapmap];0.89[TSI][hapmap];0.80[AMR][1000 genomes];0.92[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs674128	0.86[AMR][1000 genomes];0.87[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs678107	0.82[CEU][hapmap];0.90[CHB][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.88[MEX][hapmap];0.89[TSI][hapmap];0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs679339	0.82[CEU][hapmap];1.00[JPT][hapmap]
rs688673	1.00[JPT][hapmap]
rs72794789	0.89[AFR][1000 genomes];0.83[AMR][1000 genomes];0.96[EUR][1000 genomes];0.86[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv529606	chr2:40206280-40896881	Flanking Active TSS Enhancers Active TSS Weak transcription Genic enhancers ZNF genes & repeats Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
2	esv1851152	chr2:40393223-40512023	Weak transcription Active TSS Enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
3	nsv873911	chr2:40423454-41161464	ZNF genes & repeats Enhancers Weak transcription Active TSS Strong transcription Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
4	nsv1008190	chr2:40429442-40506772	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Genic enhancers Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
5	esv34071	chr2:40435231-40578229	Weak transcription Active TSS Enhancers Flanking Active TSS Strong transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
6	nsv524586	chr2:40447587-40497501	Weak transcription Enhancers Flanking Active TSS Genic enhancers ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
7	nsv873912	chr2:40468418-40492315	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
8	nsv873913	chr2:40469705-40485074	Enhancers Weak transcription Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:24 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:40448000-40487400	Weak transcription	Monocytes-CD14+_RO01746	blood
2	chr2:40451400-40490000	Weak transcription	Dnd41	blood
3	chr2:40467800-40487400	Weak transcription	Primary monocytes fromperipheralblood	blood
4	chr2:40470400-40481200	Weak transcription	Brain Germinal Matrix	brain
5	chr2:40472200-40478600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
6	chr2:40472400-40478400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
7	chr2:40472600-40477800	Weak transcription	Colon Smooth Muscle	Colon
8	chr2:40472600-40487200	Weak transcription	HSMM	muscle
9	chr2:40472800-40478400	Weak transcription	Rectal Mucosa Donor 31	rectum
10	chr2:40474000-40477800	Weak transcription	Duodenum Smooth Muscle	Duodenum
11	chr2:40474400-40478400	Weak transcription	Right Ventricle	heart
12	chr2:40474600-40478000	Weak transcription	Fetal Stomach	stomach
13	chr2:40475800-40478000	Weak transcription	Fetal Intestine Large	intestine
14	chr2:40475800-40478400	Weak transcription	Left Ventricle	heart
15	chr2:40475800-40478600	Enhancers	Hela-S3	cervix
16	chr2:40475800-40480000	Enhancers	Fetal Heart	heart
17	chr2:40475800-40485400	Weak transcription	Right Atrium	heart
18	chr2:40476000-40477800	Weak transcription	Fetal Intestine Small	intestine
19	chr2:40476800-40478000	Weak transcription	Primary hematopoietic stem cells	blood
20	chr2:40477200-40478400	Enhancers	Pancreatic Islets	Pancreatic Islet
21	chr2:40477200-40478800	Enhancers	Rectal Smooth Muscle	rectum
22	chr2:40477600-40478400	Enhancers	Stomach Smooth Muscle	stomach
23	chr2:40477600-40479000	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
24	chr2:40477600-40479200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--

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