Variant report

Variant	rs10438334
Chromosome Location	chr15:59843740-59843741
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 14 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs12902469	0.95[CEU][hapmap];0.90[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs35634961	0.81[EUR][1000 genomes]
rs3935730	0.81[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs3935731	0.81[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs4775178	0.95[CEU][hapmap];1.00[CHD][hapmap];0.81[JPT][hapmap];0.95[MEX][hapmap];0.83[TSI][hapmap];0.82[AMR][1000 genomes];0.89[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4775187	0.87[CEU][hapmap];1.00[MEX][hapmap]
rs55853439	0.81[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs6494119	0.95[CEU][hapmap];1.00[CHD][hapmap];0.81[JPT][hapmap];0.95[MEX][hapmap];0.83[TSI][hapmap];0.85[AMR][1000 genomes];0.92[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7176261	0.88[CEU][hapmap];0.83[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs7176837	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs9920277	0.87[CEU][hapmap];0.88[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv527307	chr15:59103328-60018487	Enhancers Genic enhancers Weak transcription Flanking Bivalent TSS/Enh Strong transcription Flanking Active TSS Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	145 gene(s)	inside rSNPs	diseases
2	nsv1044442	chr15:59765724-59955587	Weak transcription Enhancers Active TSS ZNF genes & repeats Strong transcription Flanking Active TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases
3	nsv542403	chr15:59765724-59955587	Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer Genic enhancers Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:19 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:59835400-59844200	Enhancers	Rectal Mucosa Donor 31	rectum
2	chr15:59836400-59845400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
3	chr15:59839000-59847600	Weak transcription	Small Intestine	intestine
4	chr15:59841000-59843800	Enhancers	Fetal Intestine Large	intestine
5	chr15:59841000-59844400	Enhancers	Fetal Intestine Small	intestine
6	chr15:59841400-59848200	Enhancers	HepG2	liver
7	chr15:59841600-59861600	Weak transcription	Gastric	stomach
8	chr15:59842200-59843800	Enhancers	Primary monocytes fromperipheralblood	blood
9	chr15:59842200-59843800	Enhancers	A549	lung
10	chr15:59843000-59844000	Weak transcription	Rectal Mucosa Donor 29	rectum
11	chr15:59843200-59843800	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
12	chr15:59843200-59843800	Enhancers	Duodenum Mucosa	Duodenum
13	chr15:59843200-59843800	Enhancers	Sigmoid Colon	Sigmoid Colon
14	chr15:59843400-59843800	Bivalent Enhancer	ES-I3 Cell Line	embryonic stem cell
15	chr15:59843600-59843800	Bivalent Enhancer	HUES48 Cell Line	embryonic stem cell
16	chr15:59843600-59843800	Flanking Active TSS	Colonic Mucosa	Colon
17	chr15:59843600-59844600	Enhancers	Hela-S3	cervix
18	chr15:59843600-59846000	Weak transcription	Stomach Mucosa	stomach
19	chr15:59843600-59851200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland

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dbSNP/dbVar ID: rs12345 /nsv7879
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chromosomal regions: chr1:12345-34567

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