Variant report

Variant	rs11654397
Chromosome Location	chr17:59633605-59633606
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	chr17:7738765..7740621-chr17:59632063..59633992,2	MCF-7	breast:
2	chr17:59632186..59636046-chr20:49410374..49412887,4	MCF-7	breast:
3	chr1:149222401..149225374-chr17:59632881..59634432,2	MCF-7	breast:
4	chr17:59628760..59634209-chr20:49409655..49413079,5	MCF-7	breast:
5	chr17:59633285..59634043-chr17:59648100..59648881,2	MCF-7	breast:
6	chr17:59632523..59634295-chr9:140068897..140070769,2	MCF-7	breast:
7	chr17:59149421..59151756-chr17:59633003..59634998,2	MCF-7	breast:
8	chr17:59631426..59634158-chr17:59913893..59915634,3	MCF-7	breast:
9	chr17:59632435..59633708-chr17:59651498..59652718,5	MCF-7	breast:
10	chr17:59632305..59634376-chr17:59733505..59735334,2	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000176248	Chromatin interaction
ENSG00000206737	Chromatin interaction
ENSG00000124243	Chromatin interaction

Extended variants
information (count: 30 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:28)

rs_ID	r²[population]
rs10438755	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10438756	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11650703	0.96[CEU][hapmap];1.00[CHB][hapmap];0.87[YRI][hapmap];0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11655330	0.89[CEU][hapmap];0.88[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs11869403	0.88[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs12451513	0.81[CEU][hapmap];0.93[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs12451827	0.82[CHB][hapmap];0.89[EUR][1000 genomes]
rs12452859	0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12939687	0.94[AMR][1000 genomes];0.87[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12941500	0.89[CEU][hapmap];0.90[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs12943370	0.82[CEU][hapmap];0.86[EUR][1000 genomes]
rs12949631	0.92[CEU][hapmap];1.00[CHB][hapmap];0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12952180	0.92[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs12952542	0.82[CHB][hapmap];0.89[EUR][1000 genomes]
rs1476799	0.85[CEU][hapmap];0.81[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs1476800	0.82[CHB][hapmap]
rs1558275	0.96[AMR][1000 genomes];0.89[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1558276	0.96[AMR][1000 genomes];0.89[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1860414	0.85[CEU][hapmap];0.92[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs2079796	0.82[CHB][hapmap];0.88[EUR][1000 genomes]
rs2378870	0.96[AMR][1000 genomes];0.88[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2378871	0.93[AMR][1000 genomes];0.88[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4583315	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs5024560	0.83[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs5024561	0.81[ASN][1000 genomes]
rs8070532	0.85[CEU][hapmap];0.91[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs8071653	0.85[CEU][hapmap];0.92[EUR][1000 genomes]
rs977745	0.85[CEU][hapmap];0.82[CHB][hapmap];0.91[EUR][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	nsv457864	chr17:59612041-59646764	Active TSS Enhancers Bivalent Enhancer Weak transcription Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS	Chromatin interactive region	26 gene(s)	inside rSNPs	diseases
2	nsv575840	chr17:59612041-59646764	Enhancers Flanking Active TSS Weak transcription Bivalent Enhancer Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh	Chromatin interactive region	26 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr17:59630400-59634600	Enhancers	Dnd41	blood
2	chr17:59631400-59633800	Enhancers	Fetal Lung	lung
3	chr17:59633400-59633800	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
4	chr17:59633400-59633800	Bivalent Enhancer	Osteobl	bone
5	chr17:59633400-59634400	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
6	chr17:59633600-59633800	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
7	chr17:59633600-59634000	Enhancers	Cortex derived primary cultured neurospheres	brain
8	chr17:59633600-59634200	Flanking Active TSS	NHLF	lung
9	chr17:59633600-59634400	Flanking Active TSS	A549	lung

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