Variant report

Variant	rs2938783
Chromosome Location	chr5:59105651-59105652
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr5:59105509..59106419-chr5:59678283..59679226,3	MCF-7	breast:
2	chr5:59105406..59106391-chr5:59457337..59458134,2	MCF-7	breast:
3	chr5:59098713..59101064-chr5:59105628..59107812,2	MCF-7	breast:

Extended variants
information (count: 54 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:51)

rs_ID	r²[population]
rs1008709	0.96[CEU][hapmap];0.80[CHB][hapmap];0.80[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1027747	0.82[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.87[YRI][hapmap];0.99[ASN][1000 genomes]
rs10514857	0.82[GIH][hapmap]
rs10940649	0.80[CHB][hapmap];0.95[ASN][1000 genomes]
rs1120533	0.86[CHB][hapmap];0.82[CHD][hapmap];0.83[ASN][1000 genomes]
rs11951422	0.80[CHB][hapmap];0.85[CHD][hapmap];0.83[ASN][1000 genomes]
rs11956684	0.85[CHD][hapmap];0.81[ASN][1000 genomes]
rs12187752	0.86[GIH][hapmap];0.80[TSI][hapmap]
rs12523468	0.91[ASN][1000 genomes]
rs13155799	0.87[YRI][hapmap]
rs13168347	0.99[ASN][1000 genomes]
rs13173398	0.84[CEU][hapmap];0.80[CHB][hapmap];0.82[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs13362124	0.82[MEX][hapmap]
rs168883	0.94[CHB][hapmap];0.89[JPT][hapmap];0.82[ASN][1000 genomes]
rs17310599	0.80[CHB][hapmap];0.93[ASN][1000 genomes]
rs17311853	0.80[CHB][hapmap];0.91[ASN][1000 genomes]
rs17311925	0.80[CHB][hapmap];0.90[ASN][1000 genomes]
rs17371174	0.80[CHB][hapmap];0.90[ASN][1000 genomes]
rs17830249	0.80[CHB][hapmap];0.91[ASN][1000 genomes]
rs2067024	0.80[CHB][hapmap];0.81[ASN][1000 genomes]
rs2898247	0.80[CHB][hapmap];0.91[ASN][1000 genomes]
rs2938780	0.82[CEU][hapmap];0.80[CHB][hapmap];0.89[CHD][hapmap];0.93[ASN][1000 genomes]
rs2938786	0.96[CEU][hapmap];0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2963817	0.89[CEU][hapmap];0.80[CHB][hapmap];0.82[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2963818	0.89[CEU][hapmap];0.80[CHB][hapmap];0.89[CHD][hapmap];1.00[MEX][hapmap];0.89[TSI][hapmap];0.82[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2963821	0.96[CEU][hapmap];0.80[CHB][hapmap];0.96[YRI][hapmap];0.81[AFR][1000 genomes];0.89[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2963822	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2963825	0.92[ASN][1000 genomes]
rs2963826	0.82[CEU][hapmap];0.80[CHB][hapmap];0.89[CHD][hapmap];0.93[ASN][1000 genomes]
rs3111173	0.81[AMR][1000 genomes];0.82[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs34380238	0.89[ASN][1000 genomes]
rs4699942	0.86[GIH][hapmap];0.80[TSI][hapmap]
rs4700342	0.81[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs56312915	0.93[ASN][1000 genomes]
rs6450530	0.86[GIH][hapmap]
rs661576	0.82[ASN][1000 genomes]
rs6860907	0.86[GIH][hapmap]
rs6875850	0.87[MEX][hapmap]
rs6885294	0.89[ASN][1000 genomes]
rs72751266	0.93[ASN][1000 genomes]
rs72751270	0.93[ASN][1000 genomes]
rs72751273	0.89[ASN][1000 genomes]
rs72751280	0.91[ASN][1000 genomes]
rs72751283	0.91[ASN][1000 genomes]
rs72751285	0.89[ASN][1000 genomes]
rs72751288	0.89[ASN][1000 genomes]
rs7703963	0.90[ASN][1000 genomes]
rs7718249	0.81[ASN][1000 genomes]
rs7730821	0.80[CHB][hapmap];0.83[ASN][1000 genomes]
rs877745	0.86[GIH][hapmap]
rs986400	0.80[CHB][hapmap];0.85[CHD][hapmap];0.83[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1018015	chr5:58889470-59532667	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	13 gene(s)	inside rSNPs	diseases
2	nsv537766	chr5:58889470-59532667	Flanking Active TSS Weak transcription Enhancers Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	13 gene(s)	inside rSNPs	diseases
3	nsv534614	chr5:58962510-59388525	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Active TSS Bivalent/Poised TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	12 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:12 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:59087400-59106000	Weak transcription	Aorta	Aorta
2	chr5:59096400-59106000	Weak transcription	Fetal Brain Male	brain
3	chr5:59103200-59106000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
4	chr5:59103400-59107400	Weak transcription	Gastric	stomach
5	chr5:59103800-59106000	Weak transcription	Pancreatic Islets	Pancreatic Islet
6	chr5:59104000-59106000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
7	chr5:59104200-59106000	Weak transcription	Primary hematopoietic stem cells	blood
8	chr5:59104200-59106000	Weak transcription	Primary hematopoietic stem cells short term culture	blood
9	chr5:59104200-59106000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
10	chr5:59105400-59105800	Weak transcription	Hela-S3	cervix
11	chr5:59105600-59105800	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
12	chr5:59105600-59106000	Enhancers	HUES64 Cell Line	embryonic stem cell

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