Variant report

Variant	rs2788280
Chromosome Location	chr6:101917385-101917386
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 28 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:22)

rs_ID	r²[population]
rs1832415	0.87[YRI][hapmap]
rs2248237	0.85[CEU][hapmap];0.85[CHB][hapmap];1.00[YRI][hapmap];0.84[EUR][1000 genomes]
rs2248801	0.84[CEU][hapmap];0.85[CHB][hapmap];0.82[AFR][1000 genomes];0.84[EUR][1000 genomes]
rs2248950	0.88[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.87[YRI][hapmap]
rs2249263	0.84[CEU][hapmap];0.84[CHB][hapmap];1.00[YRI][hapmap]
rs2252682	0.89[CHB][hapmap];1.00[JPT][hapmap]
rs2255496	0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[YRI][hapmap];0.85[AFR][1000 genomes];0.87[AMR][1000 genomes];0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2518155	0.85[YRI][hapmap]
rs2518160	0.80[CEU][hapmap];0.87[YRI][hapmap];0.80[EUR][1000 genomes]
rs2518166	0.85[CEU][hapmap];0.85[CHB][hapmap];1.00[YRI][hapmap];0.84[EUR][1000 genomes]
rs2518167	0.85[CEU][hapmap];0.85[CHB][hapmap];1.00[YRI][hapmap]
rs2518171	0.84[CEU][hapmap];0.89[CHB][hapmap];1.00[YRI][hapmap]
rs2518185	0.87[YRI][hapmap]
rs2518229	0.88[AFR][1000 genomes];0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2518232	0.85[CHB][hapmap];0.85[JPT][hapmap];0.88[YRI][hapmap];0.94[AFR][1000 genomes];0.94[AMR][1000 genomes];0.86[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2518233	0.84[EUR][1000 genomes]
rs2579935	0.84[CEU][hapmap];0.80[CHB][hapmap];0.83[EUR][1000 genomes]
rs2579939	0.88[AFR][1000 genomes];0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2788279	0.84[CEU][hapmap];0.85[CHB][hapmap];1.00[YRI][hapmap];0.83[EUR][1000 genomes]
rs2788282	0.84[CEU][hapmap];0.89[CHB][hapmap];0.87[YRI][hapmap];0.82[AFR][1000 genomes];0.84[EUR][1000 genomes]
rs2852533	0.81[EUR][1000 genomes]
rs72610840	0.85[ASN][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	nsv1020400	chr6:101172705-101981665	Weak transcription Bivalent/Poised TSS Enhancers Active TSS Strong transcription Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
2	nsv538390	chr6:101172705-101981665	Flanking Active TSS Weak transcription ZNF genes & repeats Enhancers Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
3	nsv886459	chr6:101880376-101951502	Weak transcription Enhancers Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
4	nsv886460	chr6:101890395-101951502	Enhancers Weak transcription Active TSS	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
5	nsv886461	chr6:101916765-101948788	Enhancers Weak transcription	Chromatin interactive region	n/a	inside rSNPs	diseases
6	nsv886462	chr6:101916765-101951502	Weak transcription Enhancers	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:101903400-101921000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
2	chr6:101916800-101918400	Weak transcription	HUES64 Cell Line	embryonic stem cell

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