Variant report

Variant	rs3888841
Chromosome Location	chr15:40554629-40554630
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 9 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:3)

rs_ID	r²[population]
rs16970474	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2016902	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs58440273	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv530816	chr15:40003136-40586792	Bivalent Enhancer Strong transcription Enhancers Weak transcription Flanking Bivalent TSS/Enh Flanking Active TSS Genic enhancers ZNF genes & repeats Active TSS Bivalent/Poised 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
2	nsv904095	chr15:40525430-40591570	Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Weak transcription Strong transcription Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
3	nsv471240	chr15:40528155-40595627	Bivalent Enhancer Bivalent/Poised TSS Flanking Active TSS Flanking Bivalent TSS/Enh Weak transcription Active TSS Enhancers Strong transcription Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
4	esv34145	chr15:40549617-40889824	Weak transcription Strong transcription Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	66 gene(s)	inside rSNPs	diseases
5	nsv904096	chr15:40550149-40604777	Enhancers Active TSS Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Weak transcription Strong transcription Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	20 gene(s)	inside rSNPs	diseases
6	nsv510660	chr15:40552906-40721883	Strong transcription Enhancers Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	34 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:40 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:40546000-40558400	Weak transcription	Brain Anterior Caudate	brain
2	chr15:40546000-40558600	Weak transcription	Brain Angular Gyrus	brain
3	chr15:40546000-40571800	Weak transcription	Right Ventricle	heart
4	chr15:40546200-40568200	Weak transcription	Duodenum Mucosa	Duodenum
5	chr15:40546800-40559200	Weak transcription	Brain Cingulate Gyrus	brain
6	chr15:40550000-40568000	Weak transcription	Spleen	Spleen
7	chr15:40550400-40555200	Weak transcription	HSMMtube	muscle
8	chr15:40550400-40566800	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
9	chr15:40550800-40558200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
10	chr15:40551200-40554800	Weak transcription	Hela-S3	cervix
11	chr15:40551200-40558800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
12	chr15:40551400-40554800	Weak transcription	Gastric	stomach
13	chr15:40551400-40556600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
14	chr15:40551400-40558800	Weak transcription	HUES48 Cell Line	embryonic stem cell
15	chr15:40551400-40561600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
16	chr15:40551400-40571000	Weak transcription	H9 Cell Line	embryonic stem cell
17	chr15:40551600-40554800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
18	chr15:40551600-40554800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
19	chr15:40551600-40555000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
20	chr15:40551600-40555000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
21	chr15:40551600-40555000	Weak transcription	NH-A	brain
22	chr15:40551600-40555200	Weak transcription	Esophagus	oesophagus
23	chr15:40551600-40556600	Weak transcription	HUES6 Cell Line	embryonic stem cell
24	chr15:40551600-40557000	Weak transcription	Placenta	Placenta
25	chr15:40551600-40557200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
26	chr15:40551600-40557200	Weak transcription	HMEC	breast
27	chr15:40551600-40557600	Weak transcription	Pancreas	Pancrea
28	chr15:40551600-40558200	Weak transcription	Placenta Amnion	Placenta Amnion
29	chr15:40551600-40558600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
30	chr15:40551600-40560000	Weak transcription	H1 Cell Line	embryonic stem cell
31	chr15:40551600-40561800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
32	chr15:40552400-40555200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
33	chr15:40552600-40555000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
34	chr15:40553800-40554800	Strong transcription	Fetal Intestine Small	intestine
35	chr15:40553800-40558400	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
36	chr15:40553800-40570400	Strong transcription	Breast Myoepithelial Primary Cells	Breast
37	chr15:40554600-40555200	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
38	chr15:40554600-40556400	Enhancers	Fetal Intestine Large	intestine
39	chr15:40554600-40557600	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
40	chr15:40554600-40557800	Strong transcription	NHEK	skin

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