Variant report

Variant	rs10057570
Chromosome Location	chr5:56948712-56948713
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-GPBP1-6	chr5:56948309-56949058	l_2922_chr5:56945772-56949058_brain

Extended variants
information (count: 43 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:41)

rs_ID	r²[population]
rs10057880	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10077005	0.93[AFR][1000 genomes]
rs10487613	0.93[AFR][1000 genomes]
rs10487614	0.93[AFR][1000 genomes]
rs12520986	0.93[AFR][1000 genomes]
rs12655514	1.00[JPT][hapmap]
rs13185580	0.93[AFR][1000 genomes]
rs1347071	1.00[YRI][hapmap]
rs170740	0.93[AFR][1000 genomes]
rs170741	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs183477	0.93[AFR][1000 genomes]
rs1861059	1.00[YRI][hapmap]
rs2017201	0.93[AFR][1000 genomes]
rs2041678	0.93[AFR][1000 genomes]
rs2112888	1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2161500	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2191445	0.93[AFR][1000 genomes]
rs2191446	0.93[AFR][1000 genomes]
rs2191448	0.93[AFR][1000 genomes]
rs2215420	0.93[AFR][1000 genomes]
rs229960	0.93[AFR][1000 genomes]
rs229961	0.93[AFR][1000 genomes]
rs229963	0.93[AFR][1000 genomes]
rs229965	0.93[AFR][1000 genomes]
rs230853	0.93[AFR][1000 genomes]
rs230860	0.93[AFR][1000 genomes]
rs230861	0.93[AFR][1000 genomes]
rs2408849	0.93[AFR][1000 genomes]
rs2568537	1.00[YRI][hapmap]
rs2898028	0.93[AFR][1000 genomes]
rs4235474	0.93[AFR][1000 genomes]
rs4699910	0.93[AFR][1000 genomes]
rs4700214	0.93[AFR][1000 genomes]
rs6450431	0.93[AFR][1000 genomes]
rs6886241	0.93[AFR][1000 genomes]
rs7726732	0.93[AFR][1000 genomes]
rs7732108	0.93[AFR][1000 genomes]
rs854036	1.00[YRI][hapmap]
rs917655	0.93[AFR][1000 genomes]
rs986101	0.93[AFR][1000 genomes]
rs991727	0.93[AFR][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	nsv830309	chr5:56837590-56978283	Enhancers ZNF genes & repeats Weak transcription Bivalent Enhancer Flanking Active TSS Active TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
2	nsv525330	chr5:56931673-57320343	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Active TSS Strong transcription Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:15 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:56943800-56949400	Weak transcription	HSMM	muscle
2	chr5:56945000-56949800	Weak transcription	Psoas Muscle	Psoas
3	chr5:56946800-56961200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
4	chr5:56947000-56949600	Weak transcription	Right Ventricle	heart
5	chr5:56947400-56948800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
6	chr5:56947600-56949600	Weak transcription	Skeletal Muscle Female	skeletal muscle
7	chr5:56948000-56949800	Weak transcription	Aorta	Aorta
8	chr5:56948200-56950200	Enhancers	iPS-18 Cell Line	embryonic stem cell
9	chr5:56948400-56950200	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
10	chr5:56948400-56950600	Enhancers	iPS-15b Cell Line	embryonic stem cell
11	chr5:56948400-56950600	Enhancers	Fetal Heart	heart
12	chr5:56948600-56949400	Weak transcription	HUES6 Cell Line	embryonic stem cell
13	chr5:56948600-56949600	Enhancers	iPS-20b Cell Line	embryonic stem cell
14	chr5:56948600-56950000	Enhancers	HUES48 Cell Line	embryonic stem cell
15	chr5:56948600-56951000	Enhancers	Liver	Liver

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