Variant report

Variant	rs1693488
Chromosome Location	chr15:52762657-52762658
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 25 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:21)

rs_ID	r²[population]
rs10851519	1.00[AMR][1000 genomes]
rs12442200	0.83[AMR][1000 genomes]
rs1612233	1.00[AMR][1000 genomes]
rs1693490	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1693491	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1693498	1.00[AMR][1000 genomes]
rs1693503	1.00[AMR][1000 genomes]
rs1693504	0.85[AMR][1000 genomes]
rs1724582	1.00[AMR][1000 genomes]
rs1724619	0.85[AMR][1000 genomes]
rs1724620	0.85[AMR][1000 genomes]
rs1724632	0.93[AFR][1000 genomes]
rs2414157	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2453987	1.00[AMR][1000 genomes]
rs2462845	0.85[AMR][1000 genomes]
rs2462852	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2646030	0.83[AMR][1000 genomes]
rs2693464	1.00[AMR][1000 genomes]
rs2693471	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2950061	0.96[AFR][1000 genomes];0.85[AMR][1000 genomes]
rs7176554	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv471245	chr15:52607262-53187165	Weak transcription Strong transcription Active TSS Enhancers Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	52 gene(s)	inside rSNPs	diseases
2	nsv1041421	chr15:52661342-53148286	Flanking Active TSS Weak transcription Enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Strong transcription Bivalent/Poised TSS Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	51 gene(s)	inside rSNPs	diseases
3	nsv1054899	chr15:52662365-52803756	Enhancers Genic enhancers Strong transcription Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
4	esv1832020	chr15:52702400-52901914	Enhancers Flanking Active TSS Weak transcription Genic enhancers Strong transcription Bivalent/Poised TSS Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	33 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:52757200-52770400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
2	chr15:52757400-52771800	Weak transcription	Primary T cells from cord blood	blood
3	chr15:52758600-52772000	Weak transcription	HUVEC	blood vessel
4	chr15:52758600-52773000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
5	chr15:52758800-52773000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
6	chr15:52759000-52772000	Weak transcription	Primary hematopoietic stem cells short term culture	blood
7	chr15:52759200-52763800	Weak transcription	Rectal Mucosa Donor 29	rectum
8	chr15:52759200-52770600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
9	chr15:52759200-52771000	Weak transcription	Primary T helper cells PMA-I stimulated	--
10	chr15:52759200-52778200	Weak transcription	Right Atrium	heart
11	chr15:52759400-52763800	Weak transcription	H1 Cell Line	embryonic stem cell
12	chr15:52759400-52773000	Weak transcription	Brain Angular Gyrus	brain
13	chr15:52759800-52773000	Weak transcription	Monocytes-CD14+_RO01746	blood
14	chr15:52760400-52770600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
15	chr15:52762200-52763600	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
16	chr15:52762600-52770000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin

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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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