Variant report

Variant	rs963798
Chromosome Location	chr13:39389693-39389694
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 13 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:11)

rs_ID	r²[population]
rs11618193	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs12867320	0.92[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs1577040	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs4335664	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs4381466	1.00[CEU][hapmap];0.95[GIH][hapmap];0.81[MEX][hapmap];0.95[TSI][hapmap];0.92[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs4408417	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs4587834	1.00[CEU][hapmap];0.95[GIH][hapmap];0.81[MEX][hapmap];0.95[TSI][hapmap];0.92[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs9532282	0.92[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs9532283	1.00[ASW][hapmap];1.00[CEU][hapmap];0.90[CHB][hapmap];1.00[CHD][hapmap];0.97[GIH][hapmap];0.90[JPT][hapmap];0.98[LWK][hapmap];0.86[MEX][hapmap];0.98[MKK][hapmap];0.98[TSI][hapmap];1.00[YRI][hapmap];0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9548460	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs9576616	0.88[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	nsv832585	chr13:39233307-39424375	Weak transcription Bivalent/Poised TSS Active TSS Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
2	esv2754118	chr13:39347702-40222644	Flanking Active TSS Enhancers Weak transcription ZNF genes & repeats Bivalent Enhancer Strong transcription Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	22 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	chr13:39386800-39390000	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
2	chr13:39388200-39390000	Enhancers	HMEC	breast
3	chr13:39388400-39390000	Enhancers	Breast Myoepithelial Primary Cells	Breast
4	chr13:39388400-39390200	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
5	chr13:39388800-39390000	Enhancers	NHEK	skin
6	chr13:39388800-39392600	Weak transcription	Cortex derived primary cultured neurospheres	brain
7	chr13:39389000-39397400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
8	chr13:39389200-39390000	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
9	chr13:39389200-39393200	Weak transcription	Pancreas	Pancrea
10	chr13:39389200-39404800	Weak transcription	Gastric	stomach
11	chr13:39389400-39395800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
12	chr13:39389400-39423000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland

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dbSNP/dbVar ID: rs12345 /nsv7879
a single nucleotide as 0-based coordinates: chr1:12345
chromosomal regions: chr1:12345-34567

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