Variant report

Variant	rs1503155
Chromosome Location	chr6:54736727-54736728
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:54587916..54591176-chr6:54736715..54740306,4	MCF-7	breast:
2	chr6:54704497..54716767-chr6:54728797..54750947,71	MCF-7	breast:
3	chr6:54562484..54564963-chr6:54735331..54738094,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000168143	Chromatin interaction
ENSG00000224984	Chromatin interaction

Extended variants
information (count: 31 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:29)

rs_ID	r²[population]
rs1155748	0.83[CEU][hapmap];0.88[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs1503138	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs1503153	0.92[EUR][1000 genomes]
rs17678648	0.83[CEU][hapmap];0.85[EUR][1000 genomes]
rs2221335	0.83[CEU][hapmap];1.00[GIH][hapmap];0.92[TSI][hapmap];0.92[EUR][1000 genomes]
rs239786	0.81[CEU][hapmap];0.83[EUR][1000 genomes]
rs239795	0.83[CEU][hapmap];0.92[TSI][hapmap];0.83[EUR][1000 genomes]
rs239800	0.85[EUR][1000 genomes]
rs239804	0.85[EUR][1000 genomes]
rs239809	0.85[EUR][1000 genomes]
rs239811	0.85[EUR][1000 genomes]
rs239814	0.80[EUR][1000 genomes]
rs239817	0.80[EUR][1000 genomes]
rs239820	0.85[EUR][1000 genomes]
rs239821	0.85[EUR][1000 genomes]
rs239822	0.83[CEU][hapmap];0.85[EUR][1000 genomes]
rs2746441	0.83[CEU][hapmap];0.83[EUR][1000 genomes]
rs2746442	0.83[EUR][1000 genomes]
rs376894	0.85[EUR][1000 genomes]
rs4143677	0.83[CEU][hapmap];1.00[GIH][hapmap];1.00[TSI][hapmap];0.86[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs4715488	0.83[CEU][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs6459030	0.92[ASW][hapmap];0.83[CEU][hapmap];1.00[GIH][hapmap];0.95[LWK][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs7749067	0.83[CEU][hapmap];1.00[GIH][hapmap];0.92[TSI][hapmap];0.92[EUR][1000 genomes]
rs7761633	0.83[CEU][hapmap];0.86[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs9357820	0.82[EUR][1000 genomes]
rs9367595	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs9396004	0.92[EUR][1000 genomes]
rs973206	0.83[CEU][hapmap];0.88[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs995852	0.83[CEU][hapmap];0.85[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[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	nsv885900	chr6:54517968-54852462	Active TSS Bivalent Enhancer Enhancers Weak transcription Strong transcription Bivalent/Poised TSS Genic enhancers Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
2	esv2763553	chr6:54687979-54820487	Weak transcription Active TSS Transcr. at gene 5' and 3' Flanking Active TSS Enhancers Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	11 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	chr6:54725600-54737400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
2	chr6:54725600-54737600	Weak transcription	HUES64 Cell Line	embryonic stem cell
3	chr6:54726600-54739600	Weak transcription	Small Intestine	intestine
4	chr6:54727200-54748800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
5	chr6:54727400-54740400	Weak transcription	Rectal Mucosa Donor 31	rectum
6	chr6:54727400-54743800	Weak transcription	Pancreas	Pancrea
7	chr6:54730400-54743800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
8	chr6:54731600-54737200	Weak transcription	Hela-S3	cervix
9	chr6:54731600-54739400	Weak transcription	Duodenum Mucosa	Duodenum
10	chr6:54731800-54738800	Weak transcription	Fetal Intestine Large	intestine
11	chr6:54731800-54738800	Weak transcription	Pancreatic Islets	Pancreatic Islet
12	chr6:54732200-54739200	Weak transcription	Fetal Intestine Small	intestine
13	chr6:54734600-54737400	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
14	chr6:54734600-54741800	Weak transcription	Placenta Amnion	Placenta Amnion
15	chr6:54735000-54737200	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
16	chr6:54735000-54738200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
17	chr6:54735800-54737200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
18	chr6:54735800-54737200	Weak transcription	HMEC	breast
19	chr6:54736400-54737200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
20	chr6:54736600-54736800	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
21	chr6:54736600-54737800	Genic enhancers	NHEK	skin

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links