Variant report

Variant	rs896121
Chromosome Location	chr4:21768294-21768295
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr4:21513432..21514751-chr4:21767040..21768803,10	MCF-7	breast:

Extended variants
information (count: 36 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:32)

rs_ID	r²[population]
rs10002460	0.85[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10006785	0.99[ASN][1000 genomes]
rs10012747	0.84[EUR][1000 genomes]
rs10016234	0.99[ASN][1000 genomes]
rs10028323	0.86[EUR][1000 genomes]
rs10031539	0.83[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10034603	0.84[EUR][1000 genomes]
rs12642578	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12646630	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1349384	0.81[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1380270	0.86[EUR][1000 genomes]
rs1459274	0.86[EUR][1000 genomes]
rs1471221	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1562815	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17498679	0.85[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17498715	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1809267	0.99[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1827590	0.84[EUR][1000 genomes]
rs1841182	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1985182	0.83[AFR][1000 genomes];0.87[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1993037	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2018175	0.86[EUR][1000 genomes]
rs28667579	0.83[AFR][1000 genomes];0.88[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs35609084	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6448069	0.84[EUR][1000 genomes]
rs6448070	0.84[EUR][1000 genomes]
rs6448072	0.85[EUR][1000 genomes]
rs6448073	0.85[EUR][1000 genomes]
rs6448075	0.86[EUR][1000 genomes]
rs6856781	0.85[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7378252	0.84[EUR][1000 genomes]
rs9291430	0.85[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv817467	chr4:21602921-22422816	Weak transcription Strong transcription Enhancers Flanking Active TSS Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
2	nsv878751	chr4:21712050-21793807	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS Active TSS	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
3	nsv4269	chr4:21761429-21806056	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
4	nsv980440	chr4:21765590-21771393	Enhancers Weak transcription Flanking Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

Chromatin state (count:11 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:21766000-21771000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
2	chr4:21766400-21770000	Weak transcription	HMEC	breast
3	chr4:21766600-21780200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
4	chr4:21767600-21768800	Enhancers	HUES48 Cell Line	embryonic stem cell
5	chr4:21767600-21768800	Enhancers	iPS-18 Cell Line	embryonic stem cell
6	chr4:21767800-21768800	Enhancers	ES-I3 Cell Line	embryonic stem cell
7	chr4:21767800-21768800	Enhancers	HUES64 Cell Line	embryonic stem cell
8	chr4:21767800-21769000	Enhancers	iPS-20b Cell Line	embryonic stem cell
9	chr4:21767800-21769000	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
10	chr4:21768000-21768400	Enhancers	H1 Cell Line	embryonic stem cell
11	chr4:21768000-21770000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links