Variant report

Variant	rs61554133
Chromosome Location	chr15:82567745-82567746
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 75 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:53)

rs_ID	r²[population]
rs11073036	0.92[ASN][1000 genomes]
rs11630197	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11631813	0.90[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs11633000	0.85[ASN][1000 genomes]
rs11854289	0.89[ASN][1000 genomes]
rs11854483	0.89[ASN][1000 genomes]
rs12324875	0.95[ASN][1000 genomes]
rs1501367	0.82[ASN][1000 genomes]
rs1566559	0.81[ASN][1000 genomes]
rs1566560	0.81[ASN][1000 genomes]
rs1566561	0.95[ASN][1000 genomes]
rs16973457	0.89[ASN][1000 genomes]
rs1846908	0.81[ASN][1000 genomes]
rs1948741	0.92[ASN][1000 genomes]
rs1948742	0.91[ASN][1000 genomes]
rs1972460	0.92[ASN][1000 genomes]
rs2016372	0.96[ASN][1000 genomes]
rs2047679	0.83[ASN][1000 genomes]
rs2134046	0.84[ASN][1000 genomes]
rs2457497	0.81[ASN][1000 genomes]
rs28454949	0.86[ASN][1000 genomes]
rs28522807	0.89[ASN][1000 genomes]
rs3759800	0.83[ASN][1000 genomes]
rs3858953	0.87[ASN][1000 genomes]
rs3902959	0.83[ASN][1000 genomes]
rs4238534	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4267268	0.94[ASN][1000 genomes]
rs4296215	0.90[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs4778674	0.87[ASN][1000 genomes]
rs4778986	0.95[ASN][1000 genomes]
rs4778987	0.98[ASN][1000 genomes]
rs4778990	0.87[ASN][1000 genomes]
rs56398167	0.92[ASN][1000 genomes]
rs7167504	0.93[ASN][1000 genomes]
rs7176926	0.83[ASN][1000 genomes]
rs72749540	0.92[ASN][1000 genomes]
rs72749557	0.93[ASN][1000 genomes]
rs72749560	0.93[ASN][1000 genomes]
rs72749561	0.93[ASN][1000 genomes]
rs72749564	0.94[ASN][1000 genomes]
rs72749575	0.90[ASN][1000 genomes]
rs72749586	0.96[ASN][1000 genomes]
rs7403041	0.87[ASN][1000 genomes]
rs7403244	0.87[ASN][1000 genomes]
rs8025964	0.90[ASN][1000 genomes]
rs8027301	0.93[ASN][1000 genomes]
rs8027661	0.93[ASN][1000 genomes]
rs8030210	0.92[ASN][1000 genomes]
rs8030250	0.92[ASN][1000 genomes]
rs8032633	0.92[ASN][1000 genomes]
rs8033313	0.98[ASN][1000 genomes]
rs905450	0.89[ASN][1000 genomes]
rs9972440	0.98[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:22 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv457212	chr15:82454283-82573255	Strong transcription Weak transcription Enhancers Genic enhancers Active TSS Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
2	nsv570243	chr15:82454283-82573255	Weak transcription Active TSS Strong transcription Flanking Active TSS Enhancers Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
3	nsv457213	chr15:82456227-82573255	Enhancers Strong transcription Weak transcription Flanking Active TSS Transcr. at gene 5' and 3' Active TSS Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
4	nsv570244	chr15:82456227-82573255	Strong transcription Weak transcription Flanking Active TSS Enhancers Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
5	nsv570245	chr15:82456227-82591082	Weak transcription Enhancers Flanking Active TSS Active TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
6	nsv1041040	chr15:82465124-82606410	Strong transcription Weak transcription Enhancers Genic enhancers ZNF genes & repeats Active TSS Flanking Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
7	esv1801737	chr15:82468455-82589044	Strong transcription Weak transcription Genic enhancers Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
8	nsv570246	chr15:82485707-82581264	Flanking Active TSS Weak transcription Strong transcription Active TSS Enhancers Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
9	nsv1041506	chr15:82496164-82581427	Flanking Active TSS Weak transcription Strong transcription Active TSS Enhancers Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
10	esv1798145	chr15:82506790-82581264	Weak transcription Strong transcription Active TSS Flanking Active TSS Transcr. at gene 5' and 3' Enhancers Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
11	nsv904440	chr15:82524544-82591082	Weak transcription Strong transcription Active TSS Flanking Active TSS Enhancers Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
12	nsv904441	chr15:82532963-82580736	Weak transcription Strong transcription Flanking Active TSS Enhancers Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
13	nsv904442	chr15:82540174-82571046	Flanking Active TSS Weak transcription Enhancers Active TSS Genic enhancers Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
14	nsv1054025	chr15:82540486-83058214	Enhancers Active TSS Weak transcription Flanking Active TSS Strong transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	31 gene(s)	inside rSNPs	diseases
15	nsv904443	chr15:82553472-82571780	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
16	esv3427712	chr15:82565197-82568820	Weak transcription ZNF genes & repeats Strong transcription Enhancers	Chromatin interactive region	n/a	inside rSNPs	diseases
17	esv3311857	chr15:82565697-82567902	Weak transcription ZNF genes & repeats Enhancers Strong transcription	Chromatin interactive region	n/a	inside rSNPs	diseases
18	esv3311858	chr15:82565697-82567902	Weak transcription Strong transcription ZNF genes & repeats Enhancers	Chromatin interactive region	n/a	inside rSNPs	diseases
19	esv3346127	chr15:82565725-82567909	Weak transcription Strong transcription ZNF genes & repeats Enhancers	Chromatin interactive region	n/a	inside rSNPs	diseases
20	esv3365324	chr15:82565739-82567911	Weak transcription Strong transcription ZNF genes & repeats Enhancers	Chromatin interactive region	n/a	inside rSNPs	diseases
21	esv3504278	chr15:82565742-82567856	Weak transcription Enhancers Strong transcription ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	diseases
22	esv3504279	chr15:82565742-82567856	ZNF genes & repeats Weak transcription Strong transcription Enhancers	Chromatin interactive region	n/a	inside rSNPs	diseases

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs61554133	RP13-996F3.5	cis	Esophagus Mucosa	GTEx
rs61554133	RP11-152F13.8	cis	Esophagus Mucosa	GTEx
rs61554133	FLJ40113///LOC161527///LOC440295///LOC642346	N/A	lymphoblastoid	RTeQTL

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:82561200-82568400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
2	chr15:82561400-82568000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
3	chr15:82561800-82569400	ZNF genes & repeats	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
4	chr15:82562400-82568000	Weak transcription	NHEK	skin
5	chr15:82564800-82568200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
6	chr15:82564800-82568600	Weak transcription	Brain Anterior Caudate	brain
7	chr15:82564800-82570000	Weak transcription	Brain Cingulate Gyrus	brain
8	chr15:82566400-82568400	ZNF genes & repeats	iPS-20b Cell Line	embryonic stem cell
9	chr15:82566400-82568400	Strong transcription	Fetal Lung	lung
10	chr15:82566800-82569800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
11	chr15:82567600-82567800	Weak transcription	K562	blood

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