Variant report

Variant	rs1876625
Chromosome Location	chr5:108024159-108024160
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 17 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:14)

rs_ID	r²[population]
rs10045221	0.88[CEU][hapmap]
rs10053099	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10055749	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10065015	0.89[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10068485	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10072827	0.89[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10477926	0.85[EUR][1000 genomes]
rs10477927	1.00[CEU][hapmap];0.85[EUR][1000 genomes]
rs12332706	0.97[AFR][1000 genomes];0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs13436390	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1876624	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2416193	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs60052254	0.90[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs6873702	1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[TSI][hapmap];0.85[EUR][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	nsv882689	chr5:107595383-108299744	Enhancers ZNF genes & repeats Active TSS Strong transcription Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	61 gene(s)	inside rSNPs	diseases
2	nsv1024076	chr5:107991426-108028223	Enhancers Weak transcription Active TSS Flanking Active TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
3	nsv980959	chr5:108023194-108043010	Enhancers Weak transcription	Chromatin interactive region	3 gene(s)	inside rSNPs	n/a

No data

Chromatin state (count:16 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:108007000-108034800	Weak transcription	Right Atrium	heart
2	chr5:108021200-108024400	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
3	chr5:108021200-108024600	Enhancers	HUES48 Cell Line	embryonic stem cell
4	chr5:108021400-108024200	Enhancers	Cortex derived primary cultured neurospheres	brain
5	chr5:108021800-108024200	Enhancers	HUES64 Cell Line	embryonic stem cell
6	chr5:108022000-108024200	Enhancers	Brain Angular Gyrus	brain
7	chr5:108022000-108024400	Enhancers	Brain Inferior Temporal Lobe	brain
8	chr5:108022200-108024200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
9	chr5:108022400-108024200	Enhancers	iPS-18 Cell Line	embryonic stem cell
10	chr5:108022400-108024400	Enhancers	iPS-15b Cell Line	embryonic stem cell
11	chr5:108022600-108024400	Enhancers	ES-I3 Cell Line	embryonic stem cell
12	chr5:108022600-108024600	Enhancers	HUES6 Cell Line	embryonic stem cell
13	chr5:108022800-108024400	Enhancers	Fetal Thymus	thymus
14	chr5:108023000-108024200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
15	chr5:108023000-108024400	Enhancers	GM12878-XiMat	blood
16	chr5:108023800-108024400	Enhancers	H9 Cell Line	embryonic stem cell

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dbSNP/dbVar ID: rs12345 /nsv7879
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chromosomal regions: chr1:12345-34567

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