Variant report

Variant	rs7519717
Chromosome Location	chr1:85508113-85508114
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 42 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:37)

rs_ID	r²[population]
rs10782535	1.00[GIH][hapmap];1.00[TSI][hapmap];1.00[ASN][1000 genomes]
rs10873675	1.00[ASN][1000 genomes]
rs1458401	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17371429	1.00[EUR][1000 genomes]
rs2028304	0.93[LWK][hapmap];0.85[MKK][hapmap];1.00[YRI][hapmap];0.81[AFR][1000 genomes]
rs2039814	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs486647	1.00[ASN][1000 genomes]
rs4907122	1.00[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs496561	1.00[ASN][1000 genomes]
rs499579	1.00[ASN][1000 genomes]
rs511765	1.00[ASN][1000 genomes]
rs517156	1.00[ASN][1000 genomes]
rs531169	1.00[ASN][1000 genomes]
rs534908	1.00[ASN][1000 genomes]
rs562126	1.00[ASN][1000 genomes]
rs586403	1.00[ASN][1000 genomes]
rs589227	1.00[ASN][1000 genomes]
rs599137	1.00[ASN][1000 genomes]
rs599888	1.00[ASN][1000 genomes]
rs607298	1.00[ASN][1000 genomes]
rs614194	0.80[YRI][hapmap];1.00[ASN][1000 genomes]
rs61769365	1.00[ASN][1000 genomes]
rs641427	1.00[ASN][1000 genomes]
rs6576737	1.00[ASN][1000 genomes]
rs6576740	1.00[ASW][hapmap];1.00[GIH][hapmap];0.96[LWK][hapmap];0.98[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs6576742	1.00[ASN][1000 genomes]
rs6576743	1.00[ASW][hapmap];1.00[GIH][hapmap];0.96[LWK][hapmap];0.98[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs664763	1.00[ASN][1000 genomes]
rs6679539	0.93[LWK][hapmap];0.85[MKK][hapmap];1.00[YRI][hapmap]
rs6684210	1.00[ASN][1000 genomes]
rs679932	1.00[ASN][1000 genomes]
rs680330	1.00[ASN][1000 genomes]
rs7522239	0.93[LWK][hapmap];0.85[MKK][hapmap];1.00[YRI][hapmap]
rs7533496	1.00[GIH][hapmap];1.00[TSI][hapmap];1.00[ASN][1000 genomes]
rs7537692	1.00[ASN][1000 genomes]
rs920340	1.00[ASN][1000 genomes]
rs9804097	1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv470724	chr1:85334788-85585260	Active TSS Bivalent/Poised TSS Flanking Active TSS Enhancers Bivalent Enhancer Weak transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
2	nsv462383	chr1:85334788-85594466	Enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Strong transcription Weak transcription Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
3	nsv546700	chr1:85334788-85594466	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
4	nsv947434	chr1:85334915-85594135	Bivalent/Poised TSS Enhancers Active TSS Bivalent Enhancer Weak transcription Flanking Bivalent TSS/Enh Flanking Active TSS Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
5	nsv1006994	chr1:85454304-86327679	Active TSS Enhancers Weak transcription Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	72 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:18 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:85485400-85513000	Weak transcription	Pancreas	Pancrea
2	chr1:85486000-85513000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
3	chr1:85495000-85512800	Weak transcription	HMEC	breast
4	chr1:85496800-85512400	Weak transcription	Pancreatic Islets	Pancreatic Islet
5	chr1:85504600-85508800	Weak transcription	Fetal Intestine Small	intestine
6	chr1:85505200-85511800	Weak transcription	Fetal Intestine Large	intestine
7	chr1:85507800-85508200	Enhancers	iPS-20b Cell Line	embryonic stem cell
8	chr1:85507800-85508400	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
9	chr1:85507800-85508600	Enhancers	ES-I3 Cell Line	embryonic stem cell
10	chr1:85507800-85508600	Enhancers	HUES64 Cell Line	embryonic stem cell
11	chr1:85507800-85508600	Enhancers	iPS-18 Cell Line	embryonic stem cell
12	chr1:85507800-85508600	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
13	chr1:85507800-85508800	Enhancers	HUES48 Cell Line	embryonic stem cell
14	chr1:85507800-85510200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
15	chr1:85508000-85508200	Enhancers	ES-WA7 Cell Line	embryonic stem cell
16	chr1:85508000-85508200	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
17	chr1:85508000-85508400	Enhancers	H9 Cell Line	embryonic stem cell
18	chr1:85508000-85508400	Bivalent Enhancer	iPS-15b Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links