Variant report

Variant	rs17616148
Chromosome Location	chr7:80786033-80786034
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr7:80545430..80553146-chr7:80785929..80793151,13	MCF-7	breast:
2	chr7:80779464..80781511-chr7:80784882..80787080,2	MCF-7	breast:
3	chr7:80781139..80783357-chr7:80784311..80786613,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000075223	Chromatin interaction

Extended variants
information (count: 48 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:45)

rs_ID	r²[population]
rs1024548	0.91[CEU][hapmap];0.86[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs10264882	0.95[CEU][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11972689	0.91[CEU][hapmap];0.91[EUR][1000 genomes]
rs11974102	0.91[EUR][1000 genomes]
rs11975023	0.88[EUR][1000 genomes]
rs11975948	0.91[EUR][1000 genomes]
rs11976314	0.87[CEU][hapmap];0.91[EUR][1000 genomes]
rs11977048	0.87[CEU][hapmap];0.91[EUR][1000 genomes]
rs12666916	0.85[EUR][1000 genomes]
rs13228254	0.93[ASN][1000 genomes]
rs13242185	0.91[CEU][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1397008	0.92[EUR][1000 genomes]
rs1397009	0.86[EUR][1000 genomes]
rs1509912	0.90[CEU][hapmap];0.91[EUR][1000 genomes]
rs1605917	0.87[AFR][1000 genomes];0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16887017	0.95[CEU][hapmap];0.86[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs1859678	0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs327703	0.82[CEU][hapmap]
rs327704	0.95[CEU][hapmap];0.81[EUR][1000 genomes]
rs327705	0.87[CEU][hapmap]
rs327706	0.82[CEU][hapmap]
rs327710	0.95[CEU][hapmap]
rs34252288	0.82[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35141375	0.87[AFR][1000 genomes];0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56034302	0.92[AFR][1000 genomes];0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62467422	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6467590	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6956639	0.93[ASN][1000 genomes]
rs6957595	0.93[ASN][1000 genomes]
rs6967382	0.86[EUR][1000 genomes]
rs6967567	0.86[EUR][1000 genomes]
rs7776566	0.91[EUR][1000 genomes]
rs7778696	0.91[EUR][1000 genomes]
rs7779992	0.94[AFR][1000 genomes];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7788722	0.84[EUR][1000 genomes]
rs7794312	0.91[EUR][1000 genomes]
rs7794577	0.92[EUR][1000 genomes]
rs7794595	0.91[EUR][1000 genomes]
rs7795202	0.97[AFR][1000 genomes];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7797263	0.83[CEU][hapmap];0.86[EUR][1000 genomes]
rs7798421	0.92[EUR][1000 genomes]
rs7802063	0.94[EUR][1000 genomes]
rs7809013	0.92[EUR][1000 genomes]
rs7810096	0.91[EUR][1000 genomes]
rs980966	0.91[CEU][hapmap];0.91[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	nsv1034690	chr7:80520004-80987682	Enhancers Weak transcription Strong transcription Flanking Active TSS Genic enhancers Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases
2	nsv888556	chr7:80695828-80797794	Weak transcription Enhancers Active TSS Strong transcription ZNF genes & repeats Flanking Active TSS Bivalent Enhancer	Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
3	nsv831044	chr7:80721773-80918591	Enhancers Weak transcription Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:26 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:80780600-80787000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
2	chr7:80780600-80791000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
3	chr7:80781200-80790000	Weak transcription	HSMM	muscle
4	chr7:80783000-80788400	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
5	chr7:80783000-80788600	Enhancers	HUES64 Cell Line	embryonic stem cell
6	chr7:80783200-80787800	Enhancers	ES-I3 Cell Line	embryonic stem cell
7	chr7:80783200-80788200	Enhancers	iPS-15b Cell Line	embryonic stem cell
8	chr7:80783400-80788000	Enhancers	iPS-18 Cell Line	embryonic stem cell
9	chr7:80784000-80787600	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
10	chr7:80784000-80788000	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
11	chr7:80784200-80788600	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
12	chr7:80784200-80789000	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
13	chr7:80784400-80788800	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
14	chr7:80785200-80790600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
15	chr7:80785200-80796400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
16	chr7:80785600-80787000	Weak transcription	H1 Cell Line	embryonic stem cell
17	chr7:80785600-80787600	Weak transcription	Fetal Kidney	kidney
18	chr7:80785600-80787800	Enhancers	HUES48 Cell Line	embryonic stem cell
19	chr7:80785600-80787800	Enhancers	HUES6 Cell Line	embryonic stem cell
20	chr7:80785600-80790600	Weak transcription	HMEC	breast
21	chr7:80785600-80790600	Weak transcription	NH-A	brain
22	chr7:80785800-80786400	Enhancers	iPS-20b Cell Line	embryonic stem cell
23	chr7:80785800-80786400	Flanking Active TSS	A549	lung
24	chr7:80785800-80787400	Enhancers	HepG2	liver
25	chr7:80785800-80790400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
26	chr7:80785800-80790600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links