Variant report

Variant	rs16987384
Chromosome Location	chr2:20328894-20328895
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr2:20328337..20331162-chr2:20332733..20334257,2	K562	blood:
2	chr2:20324363..20326500-chr2:20327352..20329382,2	MCF-7	breast:
3	chr2:20326769..20329313-chr2:20498796..20501273,2	K562	blood:
4	chr2:20320788..20324422-chr2:20327103..20331085,4	MCF-7	breast:
5	chr2:20322930..20324449-chr2:20326209..20329108,2	K562	blood:

Extended variants
information (count: 18 )
Associated
traits (count: 1 )

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

rs_ID	r²[population]
rs10193851	1.00[CHB][hapmap];0.85[JPT][hapmap];0.80[ASN][1000 genomes]
rs10205345	1.00[CHB][hapmap];1.00[CHD][hapmap];0.85[JPT][hapmap];0.80[ASN][1000 genomes]
rs11903770	1.00[CEU][hapmap]
rs13384258	1.00[CEU][hapmap];0.82[CHB][hapmap];1.00[MEX][hapmap]
rs13389730	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[YRI][hapmap];0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13394115	1.00[MEX][hapmap]
rs13398487	1.00[CHB][hapmap];0.85[JPT][hapmap]
rs13414082	1.00[CHB][hapmap];0.85[JPT][hapmap];0.80[ASN][1000 genomes]
rs13415910	1.00[CEU][hapmap];0.82[CHB][hapmap];1.00[MEX][hapmap]
rs16987387	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6724651	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7564193	0.80[ASN][1000 genomes]
rs7586565	1.00[CHB][hapmap];0.85[JPT][hapmap]
rs7587797	1.00[MEX][hapmap]
rs7607854	0.80[ASN][1000 genomes]
rs9306889	1.00[CEU][hapmap];1.00[CHB][hapmap];0.85[JPT][hapmap];0.91[YRI][hapmap];0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];0.86[EUR][1000 genomes];0.94[ASN][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	nsv1009521	chr2:20310479-20388959	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Active TSS Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
2	nsv1012841	chr2:20328894-20415168	Enhancers Weak transcription Active TSS Strong transcription Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs16987384	CXCL10	trans	brain	seeQTL

Chromatin state (count:23 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:20323000-20329800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
2	chr2:20325800-20330800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
3	chr2:20326200-20330600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
4	chr2:20326400-20329000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
5	chr2:20326400-20329000	Weak transcription	Gastric	stomach
6	chr2:20326400-20329200	Weak transcription	Placenta	Placenta
7	chr2:20326400-20330600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
8	chr2:20326400-20334800	Weak transcription	Esophagus	oesophagus
9	chr2:20326400-20336800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
10	chr2:20326600-20329800	Weak transcription	Small Intestine	intestine
11	chr2:20326600-20330600	Weak transcription	NHEK	skin
12	chr2:20326800-20329200	Weak transcription	Pancreas	Pancrea
13	chr2:20326800-20330400	Weak transcription	Right Atrium	heart
14	chr2:20327600-20332000	Enhancers	Fetal Intestine Small	intestine
15	chr2:20328000-20332200	Enhancers	Fetal Intestine Large	intestine
16	chr2:20328200-20329800	Enhancers	Rectal Mucosa Donor 31	rectum
17	chr2:20328200-20331600	Enhancers	Colonic Mucosa	Colon
18	chr2:20328600-20329200	Enhancers	Rectal Mucosa Donor 29	rectum
19	chr2:20328600-20331800	Enhancers	Duodenum Mucosa	Duodenum
20	chr2:20328800-20329000	Bivalent Enhancer	HepG2	liver
21	chr2:20328800-20329200	Flanking Active TSS	Liver	Liver
22	chr2:20328800-20329400	Enhancers	GM12878-XiMat	blood
23	chr2:20328800-20331000	Enhancers	Stomach Mucosa	stomach

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