Variant report

Variant	rs60270549
Chromosome Location	chr15:34402571-34402572
allele	C/T
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:10)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:10 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr15:34402323..34402946-chr15:34504244..34504792,2	MCF-7	breast:
2	chr15:34401088..34402962-chr15:34501811..34503818,2	MCF-7	breast:
3	chr15:34402010..34402956-chr15:34659467..34660260,3	K562	blood:
4	chr15:34401890..34403731-chr15:34532079..34534352,2	MCF-7	breast:
5	chr15:34402115..34404646-chr15:34407237..34411184,3	K562	blood:
6	chr15:34402131..34404554-chr15:34408275..34409911,2	K562	blood:
7	chr15:34402458..34403052-chr15:34501962..34502479,2	MCF-7	breast:
8	chr15:34401848..34402956-chr15:34501932..34502951,5	K562	blood:
9	chr15:34402294..34404744-chr15:34506028..34509076,3	MCF-7	breast:
10	chr15:34401986..34402589-chr15:34502207..34502829,2	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000140199	Chromatin interaction
ENSG00000134152	Chromatin interaction
ENSG00000176454	Chromatin interaction

Extended variants
information (count: 26 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:21)

rs_ID	r²[population]
rs10152308	0.81[ASN][1000 genomes]
rs10152504	0.81[ASN][1000 genomes]
rs12438470	0.84[ASN][1000 genomes]
rs12441615	0.81[ASN][1000 genomes]
rs12898455	0.81[ASN][1000 genomes]
rs16958780	0.92[ASN][1000 genomes]
rs2339373	0.81[ASN][1000 genomes]
rs2568541	1.00[EUR][1000 genomes]
rs34196590	0.84[ASN][1000 genomes]
rs3764237	0.81[ASN][1000 genomes]
rs3764238	0.84[ASN][1000 genomes]
rs60622204	0.86[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs61675275	0.86[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs62014675	0.81[ASN][1000 genomes]
rs62014728	0.89[ASN][1000 genomes]
rs62014729	0.89[ASN][1000 genomes]
rs7178266	0.81[ASN][1000 genomes]
rs8033335	0.82[ASN][1000 genomes]
rs8037065	0.81[ASN][1000 genomes]
rs8182015	0.89[ASN][1000 genomes]
rs9972453	0.84[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	nsv456789	chr15:34034421-34426618	Weak transcription Enhancers Active TSS Flanking Active TSS Strong transcription ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
2	nsv568920	chr15:34034421-34426618	Enhancers Flanking Active TSS Strong transcription Weak transcription Active TSS Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
3	nsv471235	chr15:34035529-34421951	Strong transcription Weak transcription Enhancers Bivalent/Poised TSS Active TSS Flanking Active TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
4	nsv1035579	chr15:34363159-34501115	Strong transcription Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
5	nsv903986	chr15:34394273-34421951	Flanking Active TSS Active TSS Enhancers Weak transcription ZNF genes & repeats Transcr. at gene 5' and 3' Strong transcription Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	10 gene(s)	inside rSNPs	n/a

No data

Chromatin state (count:8 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:34395000-34407200	Weak transcription	Fetal Muscle Trunk	muscle
2	chr15:34395400-34403600	Weak transcription	Psoas Muscle	Psoas
3	chr15:34395400-34408400	Weak transcription	HSMMtube	muscle
4	chr15:34395600-34403600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
5	chr15:34395600-34408200	Weak transcription	Fetal Muscle Leg	muscle
6	chr15:34396000-34407200	Weak transcription	Skeletal Muscle Female	skeletal muscle
7	chr15:34397800-34403800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
8	chr15:34402400-34403800	Weak transcription	HepG2	liver

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links