Variant report

Variant	rs17821190
Chromosome Location	chr15:58586665-58586666
allele	C/G
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:15)

rs_ID	r²[population]
rs10518968	0.97[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs1430308	1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[ASN][1000 genomes]
rs17240713	0.94[ASN][1000 genomes]
rs17821177	0.92[ASN][1000 genomes]
rs17821184	0.94[ASN][1000 genomes]
rs17821202	0.89[ASN][1000 genomes]
rs28430899	0.83[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs28454770	0.97[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs4471613	0.82[JPT][hapmap]
rs55819716	0.82[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55901481	0.97[ASN][1000 genomes]
rs56140064	0.89[ASN][1000 genomes]
rs56302476	0.94[ASN][1000 genomes]
rs73418374	0.92[ASN][1000 genomes]
rs8024062	0.89[AMR][1000 genomes];0.97[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:10 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1047246	chr15:58375607-58707158	Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
2	nsv833024	chr15:58447459-58621963	Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Strong transcription Bivalent Enhancer Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
3	nsv904264	chr15:58505122-58588510	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Bivalent Enhancer Strong transcription Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
4	nsv904265	chr15:58517528-58588510	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
5	nsv1051058	chr15:58519922-59092530	Strong transcription Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	50 gene(s)	inside rSNPs	diseases
6	nsv542401	chr15:58519922-59092530	Strong transcription Weak transcription Active TSS Flanking Active TSS Enhancers Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	50 gene(s)	inside rSNPs	diseases
7	nsv529717	chr15:58519923-58756814	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Active TSS Strong transcription Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
8	nsv1042201	chr15:58520746-58780710	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Active TSS Bivalent/Poised TSS Strong transcription Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
9	nsv569598	chr15:58552606-58852463	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Bivalent Enhancer Genic enhancers Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
10	nsv904266	chr15:58580921-58689187	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Bivalent Enhancer Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:18 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:58583000-58590200	Weak transcription	Thymus	Thymus
2	chr15:58585600-58586800	Enhancers	GM12878-XiMat	blood
3	chr15:58585600-58587600	Enhancers	HepG2	liver
4	chr15:58585800-58586800	Enhancers	Fetal Thymus	thymus
5	chr15:58585800-58587000	Enhancers	Fetal Intestine Small	intestine
6	chr15:58585800-58587200	Enhancers	Fetal Intestine Large	intestine
7	chr15:58586000-58586800	Weak transcription	iPS-20b Cell Line	embryonic stem cell
8	chr15:58586000-58586800	Enhancers	Rectal Mucosa Donor 31	rectum
9	chr15:58586000-58587000	Enhancers	Duodenum Mucosa	Duodenum
10	chr15:58586000-58587400	Enhancers	Liver	Liver
11	chr15:58586000-58587400	Enhancers	Fetal Kidney	kidney
12	chr15:58586200-58586800	Enhancers	Sigmoid Colon	Sigmoid Colon
13	chr15:58586200-58587800	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
14	chr15:58586400-58586800	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
15	chr15:58586400-58587600	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
16	chr15:58586600-58586800	Enhancers	H1 Cell Line	embryonic stem cell
17	chr15:58586600-58587000	Enhancers	H9 Cell Line	embryonic stem cell
18	chr15:58586600-58590600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell

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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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