Variant report

Variant	rs11855543
Chromosome Location	chr15:39739411-39739412
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr15:39739352..39742846-chr15:39745277..39748876,4	MCF-7	breast:
2	chr15:39733791..39736088-chr15:39738338..39740014,2	K562	blood:

Extended variants
information (count: 43 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:34)

rs_ID	r²[population]
rs10459586	0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10520130	0.84[AMR][1000 genomes];0.96[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11070198	0.87[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs11070206	0.84[AMR][1000 genomes];0.96[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11070207	0.88[ASN][1000 genomes]
rs1158915	0.87[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1158916	0.91[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1158917	0.91[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs11854059	0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs11854786	0.82[EUR][1000 genomes]
rs11855535	0.82[EUR][1000 genomes]
rs11855977	0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs11855990	0.88[ASN][1000 genomes]
rs11857970	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12148631	1.00[CEU][hapmap];1.00[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs1551945	1.00[CEU][hapmap];1.00[CHB][hapmap];0.91[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs16952151	1.00[CEU][hapmap];1.00[CHB][hapmap];0.88[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs16969038	1.00[CEU][hapmap];1.00[JPT][hapmap];0.88[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs16969104	0.91[ASN][1000 genomes]
rs3889532	0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4286083	0.81[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4923830	0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4924362	0.91[ASN][1000 genomes]
rs5028679	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56839831	0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs56869025	0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs57248361	0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs58417285	0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs61648928	0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7171584	0.91[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs73393497	0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs8025111	0.81[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs8032303	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8034569	1.00[CEU][hapmap];1.00[CHB][hapmap];0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:9 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1049682	chr15:39657279-40027403	Enhancers Flanking Active TSS Weak transcription Strong transcription Flanking Bivalent TSS/Enh Active TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
2	nsv542361	chr15:39657279-40027403	Weak transcription Strong transcription Enhancers Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
3	nsv1042824	chr15:39676039-39757222	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
4	nsv542362	chr15:39676039-39757222	Weak transcription Enhancers Active TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
5	esv3373125	chr15:39691567-40061262	Enhancers Flanking Active TSS Transcr. at gene 5' and 3' Weak transcription Bivalent/Poised TSS Strong transcription Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
6	nsv1052908	chr15:39692049-39750193	Active TSS Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
7	nsv1044082	chr15:39693241-39750193	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
8	nsv1036091	chr15:39699841-39750193	Weak transcription Enhancers Active TSS Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
9	nsv904094	chr15:39738006-39976057	Enhancers Strong transcription Weak transcription Flanking Active TSS Active TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	17 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:21 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:39727200-39746800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
2	chr15:39727800-39740200	Weak transcription	Fetal Muscle Leg	muscle
3	chr15:39737200-39740200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
4	chr15:39737200-39742800	Weak transcription	Lung	lung
5	chr15:39737400-39742400	Weak transcription	Fetal Stomach	stomach
6	chr15:39737600-39742400	Weak transcription	Rectal Smooth Muscle	rectum
7	chr15:39737800-39742600	Weak transcription	Colon Smooth Muscle	Colon
8	chr15:39738600-39741000	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
9	chr15:39739000-39741200	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
10	chr15:39739200-39740000	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
11	chr15:39739200-39740400	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
12	chr15:39739200-39740400	Weak transcription	Fetal Thymus	thymus
13	chr15:39739400-39739800	Enhancers	HUES6 Cell Line	embryonic stem cell
14	chr15:39739400-39739800	Enhancers	iPS-20b Cell Line	embryonic stem cell
15	chr15:39739400-39740000	Enhancers	iPS-18 Cell Line	embryonic stem cell
16	chr15:39739400-39740000	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
17	chr15:39739400-39740000	Enhancers	Cortex derived primary cultured neurospheres	brain
18	chr15:39739400-39740000	Enhancers	Stomach Smooth Muscle	stomach
19	chr15:39739400-39740200	Enhancers	HUES64 Cell Line	embryonic stem cell
20	chr15:39739400-39740800	Enhancers	Placenta Amnion	Placenta Amnion
21	chr15:39739400-39742400	Enhancers	HepG2	liver

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