Variant report

Variant	rs687909
Chromosome Location	chr8:102517674-102517675
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:9)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:9 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr8:102379405..102382684-chr8:102515445..102518686,3	MCF-7	breast:
2	chr8:102326841..102405579-chr8:102488885..102536287,493	MCF-7	breast:
3	chr8:102514177..102518015-chr8:102614637..102617886,5	MCF-7	breast:
4	chr8:102515411..102517967-chr8:103250773..103252332,2	MCF-7	breast:
5	chr8:102517484..102520449-chr8:102641469..102644392,2	MCF-7	breast:
6	chr8:102513151..102515721-chr8:102516921..102520481,3	K562	blood:
7	chr8:102516454..102518219-chr8:102642884..102645952,3	MCF-7	breast:
8	chr8:102515552..102517978-chr8:102590842..102593312,2	MCF-7	breast:
9	chr8:102356607..102359345-chr8:102514811..102517702,2	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000271560	Chromatin interaction
ENSG00000246263	Chromatin interaction
ENSG00000048392	Chromatin interaction
ENSG00000254063	Chromatin interaction
ENSG00000253644	Chromatin interaction
ENSG00000083307	Chromatin interaction
ENSG00000228224	Chromatin interaction

Extended variants
information (count: 21 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:19)

rs_ID	r²[population]
rs2847730	0.91[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs475304	0.82[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs509390	0.92[ASN][1000 genomes]
rs514588	0.97[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs515622	0.94[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs523244	0.94[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs534285	0.80[ASN][1000 genomes]
rs537658	0.92[ASN][1000 genomes]
rs541154	0.85[ASN][1000 genomes]
rs541226	0.92[ASN][1000 genomes]
rs546630	0.80[ASN][1000 genomes]
rs560043	0.80[ASN][1000 genomes]
rs561626	0.80[ASN][1000 genomes]
rs567389	0.80[ASN][1000 genomes]
rs568894	0.80[ASN][1000 genomes]
rs589919	0.97[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs624013	0.82[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs680890	0.92[ASN][1000 genomes]
rs687399	0.80[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	nsv1024652	chr8:101802121-102587124	Weak transcription Enhancers Active TSS Bivalent/Poised TSS Strong transcription Flanking Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	186 gene(s)	inside rSNPs	diseases
2	nsv539699	chr8:101802121-102587124	Weak transcription Active TSS Enhancers Flanking Active TSS Genic enhancers ZNF genes & repeats Strong transcription Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	186 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:35 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr8:102507400-102526600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
2	chr8:102514000-102517800	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
3	chr8:102514800-102517800	Weak transcription	Rectal Mucosa Donor 29	rectum
4	chr8:102514800-102518400	Enhancers	HUES64 Cell Line	embryonic stem cell
5	chr8:102514800-102518400	Weak transcription	Colon Smooth Muscle	Colon
6	chr8:102514800-102526600	Weak transcription	Duodenum Mucosa	Duodenum
7	chr8:102515000-102520800	Weak transcription	Fetal Lung	lung
8	chr8:102516400-102518200	Enhancers	ES-I3 Cell Line	embryonic stem cell
9	chr8:102516400-102518400	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
10	chr8:102516400-102518400	Enhancers	Adipose Nuclei	Adipose
11	chr8:102516600-102518000	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
12	chr8:102517200-102518000	Weak transcription	Rectal Mucosa Donor 31	rectum
13	chr8:102517200-102518400	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
14	chr8:102517200-102520800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
15	chr8:102517200-102525800	Weak transcription	Pancreas	Pancrea
16	chr8:102517200-102526200	Weak transcription	Gastric	stomach
17	chr8:102517200-102526200	Weak transcription	Stomach Mucosa	stomach
18	chr8:102517200-102526400	Weak transcription	Sigmoid Colon	Sigmoid Colon
19	chr8:102517200-102526600	Weak transcription	Fetal Intestine Small	intestine
20	chr8:102517400-102518000	Enhancers	A549	lung
21	chr8:102517400-102518200	Genic enhancers	NHEK	skin
22	chr8:102517400-102518400	Weak transcription	Rectal Smooth Muscle	rectum
23	chr8:102517400-102519200	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
24	chr8:102517400-102520400	Weak transcription	HUES6 Cell Line	embryonic stem cell
25	chr8:102517400-102520400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
26	chr8:102517400-102520600	Weak transcription	HMEC	breast
27	chr8:102517400-102520800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
28	chr8:102517400-102520800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
29	chr8:102517400-102526000	Weak transcription	H1 Cell Line	embryonic stem cell
30	chr8:102517400-102526200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
31	chr8:102517400-102526400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
32	chr8:102517400-102526600	Weak transcription	Fetal Intestine Large	intestine
33	chr8:102517600-102518000	Weak transcription	H9 Cell Line	embryonic stem cell
34	chr8:102517600-102518000	Weak transcription	HUES48 Cell Line	embryonic stem cell
35	chr8:102517600-102518000	Weak transcription	iPS-18 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links