Variant report

Variant	rs1006556
Chromosome Location	chr17:19639715-19639716
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	NR3C1	chr17:19639323-19639807	A549	lung:	n/a	n/a
2	E2F6	chr17:19639707-19639904	K562	blood:	n/a	n/a
3	NR3C1	chr17:19639423-19639781	A549	lung:	n/a	n/a
4	NR3C1	chr17:19639292-19639840	A549	lung:	n/a	n/a
5	USF1	chr17:19639425-19639788	HepG2	liver:	n/a	n/a
6	POLR2A	chr17:19639442-19639874	A549	lung:	n/a	n/a
7	POLR2A	chr17:19639438-19639870	A549	lung:	n/a	n/a
8	MAX	chr17:19639302-19639891	HepG2	liver:	n/a	n/a
9	POLR2A	chr17:19639464-19639884	A549	lung:	n/a	n/a
10	NR3C1	chr17:19639300-19639947	A549	lung:	n/a	n/a
11	BCL3	chr17:19639259-19639854	A549	lung:	n/a	n/a
12	POLR2A	chr17:19639225-19640270	A549	lung:	n/a	n/a
13	TCF12	chr17:19639253-19640571	A549	lung:	n/a	chr17:19640512-19640522
14	NR3C1	chr17:19639414-19639849	A549	lung:	n/a	n/a
15	JUND	chr17:19639377-19639983	A549	lung:	n/a	n/a
16	POLR2A	chr17:19639395-19647436	A549	lung:	n/a	n/a
17	FOSL2	chr17:19639303-19639745	A549	lung:	n/a	n/a
18	NR3C1	chr17:19639343-19639737	A549	lung:	n/a	n/a

Variant related genes	Relation type
ENSG00000264785	TF binding region

Extended variants
information (count: 27 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:16)

rs_ID	r²[population]
rs12451902	0.82[ASN][1000 genomes]
rs12939864	0.91[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs12943590	0.82[ASN][1000 genomes]
rs12949049	0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs16960360	0.94[JPT][hapmap]
rs1989379	0.90[CHB][hapmap]
rs2072327	0.90[CHB][hapmap];1.00[JPT][hapmap];0.80[YRI][hapmap];0.88[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2228100	0.82[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.88[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs35263947	0.81[ASN][1000 genomes]
rs3786036	0.83[CHB][hapmap]
rs4646785	0.95[CHB][hapmap];1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs4924792	0.81[ASN][1000 genomes]
rs4925045	0.81[CHB][hapmap];0.90[JPT][hapmap];0.82[ASN][1000 genomes]
rs758426	0.82[ASN][1000 genomes]
rs9897570	0.80[JPT][hapmap]
rs9900497	0.81[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:11 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv482827	chr17:19456848-19645771	Strong transcription Enhancers Weak transcription Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Active TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	43 gene(s)	inside rSNPs	diseases
2	nsv1062853	chr17:19547912-20206601	Enhancers Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Strong transcription ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	63 gene(s)	inside rSNPs	diseases
3	nsv1063892	chr17:19564634-19808485	Weak transcription Enhancers Strong transcription Flanking Active TSS Genic enhancers Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	28 gene(s)	inside rSNPs	diseases
4	nsv907866	chr17:19582533-19697976	Weak transcription Genic enhancers Enhancers Strong transcription Bivalent/Poised TSS ZNF genes & repeats Active TSS Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	21 gene(s)	inside rSNPs	diseases
5	esv1807724	chr17:19597423-19656009	Weak transcription Enhancers Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Flanking Active TSS Strong transcription Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
6	nsv907867	chr17:19603060-19697976	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Active TSS Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	21 gene(s)	inside rSNPs	diseases
7	esv1793043	chr17:19604821-19670329	Bivalent/Poised TSS Bivalent Enhancer Enhancers Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	19 gene(s)	inside rSNPs	diseases
8	nsv526290	chr17:19613357-19651482	Flanking Active TSS Enhancers Active TSS Weak transcription Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
9	nsv457704	chr17:19620477-19663747	Active TSS Enhancers Flanking Active TSS Weak transcription Bivalent Enhancer Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
10	nsv470582	chr17:19620477-19663747	Enhancers Bivalent Enhancer Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Strong transcription Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
11	nsv574580	chr17:19620477-19663747	Weak transcription Bivalent Enhancer Flanking Active TSS Active TSS Enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Strong transcription Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:20 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr17:19623200-19648400	Weak transcription	Placenta Amnion	Placenta Amnion
2	chr17:19628200-19640800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
3	chr17:19632000-19648000	Weak transcription	Spleen	Spleen
4	chr17:19632200-19640400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
5	chr17:19634800-19640800	Weak transcription	Esophagus	oesophagus
6	chr17:19635400-19647800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
7	chr17:19636800-19641200	Enhancers	Fetal Intestine Large	intestine
8	chr17:19636800-19641600	Enhancers	Fetal Intestine Small	intestine
9	chr17:19637000-19640200	Enhancers	Stomach Mucosa	stomach
10	chr17:19637400-19640000	Enhancers	Duodenum Mucosa	Duodenum
11	chr17:19637800-19643000	Genic enhancers	A549	lung
12	chr17:19638400-19642600	Enhancers	HepG2	liver
13	chr17:19638600-19640000	Enhancers	Ovary	ovary
14	chr17:19638800-19640000	Enhancers	Fetal Adrenal Gland	Adrenal Gland
15	chr17:19639400-19639800	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
16	chr17:19639400-19639800	Enhancers	Sigmoid Colon	Sigmoid Colon
17	chr17:19639600-19639800	Bivalent Enhancer	Foreskin Fibroblast Primary Cells skin01	Skin
18	chr17:19639600-19639800	Enhancers	Gastric	stomach
19	chr17:19639600-19639800	Enhancers	Rectal Mucosa Donor 31	rectum
20	chr17:19639600-19647800	Weak transcription	Colonic Mucosa	Colon

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