Variant report

Variant	rs17687821
Chromosome Location	chr15:42231296-42231297
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr15:42229163..42231436-chr15:42239273..42241169,2	MCF-7	breast:
2	chr15:42225338..42227544-chr15:42230666..42232718,2	K562	blood:

Extended variants
information (count: 13 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:7)

rs_ID	r²[population]
rs1648858	0.96[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1648859	0.96[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1648860	0.96[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1704404	0.96[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17687461	0.84[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs17687870	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55971229	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[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	nsv931223	chr15:41989960-42781757	Enhancers Weak transcription Strong transcription Flanking Active TSS Genic enhancers Bivalent Enhancer Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	81 gene(s)	inside rSNPs	diseases
2	nsv427958	chr15:42051317-42301283	Strong transcription Weak transcription Enhancers Active TSS Bivalent Enhancer Genic enhancers Flanking Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	45 gene(s)	inside rSNPs	diseases
3	nsv1035998	chr15:42098896-42434254	Weak transcription Enhancers Strong transcription Active TSS Flanking Active TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	38 gene(s)	inside rSNPs	diseases
4	nsv1038933	chr15:42138456-42309087	Weak transcription Enhancers Genic enhancers Strong transcription Bivalent Enhancer Flanking Active TSS Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	30 gene(s)	inside rSNPs	diseases
5	nsv529687	chr15:42157320-42621682	Weak transcription Strong transcription Enhancers Active TSS Flanking Active TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	59 gene(s)	inside rSNPs	diseases
6	nsv1054728	chr15:42177772-42310009	Enhancers Genic enhancers Weak transcription Bivalent Enhancer Strong transcription Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:116 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:42221600-42232400	Weak transcription	Ovary	ovary
2	chr15:42221800-42236400	Weak transcription	Brain Angular Gyrus	brain
3	chr15:42222200-42249800	Weak transcription	Brain Inferior Temporal Lobe	brain
4	chr15:42222800-42235200	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
5	chr15:42222800-42237600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
6	chr15:42223000-42236200	Weak transcription	Colon Smooth Muscle	Colon
7	chr15:42223200-42236000	Weak transcription	HepG2	liver
8	chr15:42223200-42243800	Weak transcription	Brain Substantia Nigra	brain
9	chr15:42224800-42232600	Enhancers	Fetal Heart	heart
10	chr15:42226200-42232200	Weak transcription	HUES64 Cell Line	embryonic stem cell
11	chr15:42226200-42232400	Weak transcription	H9 Cell Line	embryonic stem cell
12	chr15:42226400-42232200	Weak transcription	Aorta	Aorta
13	chr15:42226400-42232600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
14	chr15:42226400-42233000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
15	chr15:42226600-42232200	Weak transcription	Fetal Stomach	stomach
16	chr15:42226800-42232400	Weak transcription	Stomach Smooth Muscle	stomach
17	chr15:42227000-42232400	Weak transcription	Duodenum Smooth Muscle	Duodenum
18	chr15:42227200-42238400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
19	chr15:42227400-42232200	Weak transcription	Gastric	stomach
20	chr15:42227400-42232400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
21	chr15:42227400-42232400	Weak transcription	Hela-S3	cervix
22	chr15:42227400-42232400	Weak transcription	NHLF	lung
23	chr15:42227400-42243200	Weak transcription	Stomach Mucosa	stomach
24	chr15:42227600-42232000	Weak transcription	A549	lung
25	chr15:42227600-42232400	Weak transcription	H1 Cell Line	embryonic stem cell
26	chr15:42227600-42232400	Weak transcription	HUES48 Cell Line	embryonic stem cell
27	chr15:42227600-42232400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
28	chr15:42227600-42232600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
29	chr15:42227600-42236200	Weak transcription	Fetal Kidney	kidney
30	chr15:42227600-42249200	Weak transcription	Small Intestine	intestine
31	chr15:42227800-42232000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
32	chr15:42227800-42232400	Weak transcription	HUES6 Cell Line	embryonic stem cell
33	chr15:42227800-42232400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
34	chr15:42227800-42232400	Weak transcription	Osteobl	bone
35	chr15:42228000-42232200	Weak transcription	Muscle Satellite Cultured Cells	--
36	chr15:42228200-42231600	Weak transcription	Fetal Intestine Large	intestine
37	chr15:42228200-42231800	Enhancers	Fetal Adrenal Gland	Adrenal Gland
38	chr15:42228200-42232200	Weak transcription	Pancreas	Pancrea
39	chr15:42228200-42233800	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
40	chr15:42228200-42234000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
41	chr15:42228200-42234000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
42	chr15:42228200-42235800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
43	chr15:42228400-42232400	Strong transcription	Breast Myoepithelial Primary Cells	Breast
44	chr15:42228600-42231400	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
45	chr15:42228600-42232000	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
46	chr15:42229200-42231600	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
47	chr15:42229200-42236200	Weak transcription	Fetal Lung	lung
48	chr15:42229400-42231800	Enhancers	Primary T cells from cord blood	blood
49	chr15:42229400-42233600	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
50	chr15:42229400-42235800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links