Variant report

Variant	rs7776339
Chromosome Location	chr6:12299723-12299724
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:12289734..12294573-chr6:12296754..12299785,4	K562	blood:
2	chr6:12298288..12300971-chr6:12301948..12304812,3	MCF-7	breast:
3	chr6:12299268..12300891-chr6:12602601..12604468,2	MCF-7	breast:
4	chr6:12299143..12301342-chr6:12323283..12325161,2	MCF-7	breast:
5	chr6:12295166..12297447-chr6:12299179..12301570,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000078401	Chromatin interaction

Extended variants
information (count: 20 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:19)

rs_ID	r²[population]
rs10478731	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs10478736	1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[YRI][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs16872657	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs16872662	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs17594577	0.90[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs6927883	1.00[JPT][hapmap]
rs6941575	1.00[ASN][1000 genomes]
rs73367509	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs73367510	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs73367515	0.82[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs73367519	0.82[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs73367521	0.86[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs73367522	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs73367535	0.95[ASN][1000 genomes]
rs73367540	1.00[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs73367541	1.00[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs73367542	0.95[ASN][1000 genomes]
rs73367548	1.00[AMR][1000 genomes]
rs7760229	1.00[JPT][hapmap]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv508394	chr6:12285464-12386745	Strong transcription Genic enhancers Weak transcription Flanking Active TSS Active TSS Enhancers Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:22 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:12293000-12300000	Weak transcription	HUES48 Cell Line	embryonic stem cell
2	chr6:12293200-12299800	Weak transcription	Left Ventricle	heart
3	chr6:12296600-12314400	Weak transcription	Spleen	Spleen
4	chr6:12297000-12300000	Weak transcription	Rectal Mucosa Donor 31	rectum
5	chr6:12297000-12301000	Weak transcription	HSMMtube	muscle
6	chr6:12297200-12311200	Weak transcription	HUVEC	blood vessel
7	chr6:12297600-12299800	Weak transcription	HUES64 Cell Line	embryonic stem cell
8	chr6:12298200-12299800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
9	chr6:12298200-12301000	Weak transcription	Duodenum Mucosa	Duodenum
10	chr6:12298200-12301200	Weak transcription	Fetal Intestine Large	intestine
11	chr6:12298200-12302600	Weak transcription	Rectal Mucosa Donor 29	rectum
12	chr6:12298200-12303200	Weak transcription	Fetal Intestine Small	intestine
13	chr6:12298200-12305600	Weak transcription	Placenta Amnion	Placenta Amnion
14	chr6:12298400-12300400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
15	chr6:12298400-12300600	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
16	chr6:12298400-12300600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
17	chr6:12298400-12301200	Genic enhancers	A549	lung
18	chr6:12298600-12300400	Weak transcription	HSMM	muscle
19	chr6:12298600-12301000	Weak transcription	NH-A	brain
20	chr6:12298600-12304000	Weak transcription	NHEK	skin
21	chr6:12299600-12300200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
22	chr6:12299600-12300400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links