Variant report

Variant	rs6768509
Chromosome Location	chr3:141364885-141364886
allele	A/G
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	chr3:141364553..141367355-chr3:141371924..141373576,2	MCF-7	breast:
2	chr3:141287028..141289091-chr3:141363871..141366477,2	K562	blood:
3	chr3:141362313..141364967-chr3:141594045..141596596,2	K562	blood:
4	chr3:141362984..141365569-chr3:141367265..141370000,2	MCF-7	breast:
5	chr3:141363991..141366083-chr3:141593724..141595545,2	K562	blood:
6	chr3:141364650..141368528-chr3:141456059..141460186,4	K562	blood:
7	chr3:141361497..141363664-chr3:141364151..141366468,2	MCF-7	breast:
8	chr3:141364236..141365914-chr3:141370366..141373121,2	MCF-7	breast:
9	chr3:141363993..141365921-chr3:141456988..141458727,2	MCF-7	breast:
10	chr3:141364533..141367449-chr3:141374437..141376349,2	K562	blood:

No data

Variant related genes	Relation type
ENSG00000114125	Chromatin interaction
ENSG00000069849	Chromatin interaction

Extended variants
information (count: 44 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:43)

rs_ID	r²[population]
rs10935431	0.93[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12632759	0.82[JPT][hapmap]
rs13060724	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13065795	0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs13067655	0.86[AFR][1000 genomes];0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs13072110	0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs13072855	0.83[ASN][1000 genomes]
rs13089727	1.00[CHB][hapmap];1.00[JPT][hapmap];0.99[ASN][1000 genomes]
rs13096539	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1400685	0.85[JPT][hapmap]
rs1994845	0.86[JPT][hapmap];0.80[ASN][1000 genomes]
rs2640019	0.85[JPT][hapmap]
rs295294	0.86[JPT][hapmap]
rs295296	0.86[JPT][hapmap]
rs295315	0.85[JPT][hapmap]
rs295317	0.95[JPT][hapmap]
rs34380263	0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4467426	0.85[JPT][hapmap];0.80[ASN][1000 genomes]
rs4683407	0.86[JPT][hapmap];0.80[ASN][1000 genomes]
rs4683616	0.80[ASN][1000 genomes]
rs57116525	0.86[AFR][1000 genomes]
rs58020426	0.81[ASN][1000 genomes]
rs59312699	0.80[ASN][1000 genomes]
rs6440024	0.85[JPT][hapmap];0.80[ASN][1000 genomes]
rs6440025	0.80[ASN][1000 genomes]
rs6774863	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6774986	0.80[ASN][1000 genomes]
rs6784270	0.86[JPT][hapmap]
rs6784413	0.86[JPT][hapmap];0.80[ASN][1000 genomes]
rs6784623	0.80[ASN][1000 genomes]
rs6791890	0.85[JPT][hapmap]
rs6805124	0.86[JPT][hapmap];0.80[ASN][1000 genomes]
rs71314592	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7618625	0.85[JPT][hapmap];0.80[ASN][1000 genomes]
rs7627285	0.80[ASN][1000 genomes]
rs7639695	0.86[JPT][hapmap];0.82[ASN][1000 genomes]
rs7642620	0.80[ASN][1000 genomes]
rs7650897	0.92[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs868767	0.81[JPT][hapmap]
rs868768	0.81[JPT][hapmap]
rs9289635	0.80[ASN][1000 genomes]
rs9289636	0.80[ASN][1000 genomes]
rs9289637	0.80[ASN][1000 genomes]

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	nsv949709	chr3:141295050-142178144	Weak transcription Strong transcription Flanking Active TSS Enhancers Genic enhancers Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	61 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:19 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:141361400-141365400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
2	chr3:141362600-141366400	Weak transcription	Rectal Smooth Muscle	rectum
3	chr3:141363000-141365600	Weak transcription	HSMMtube	muscle
4	chr3:141363200-141371400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
5	chr3:141363800-141366600	Weak transcription	Colon Smooth Muscle	Colon
6	chr3:141364000-141365400	Weak transcription	HepG2	liver
7	chr3:141364000-141365400	Weak transcription	K562	blood
8	chr3:141364000-141365600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
9	chr3:141364000-141365600	Weak transcription	Monocytes-CD14+_RO01746	blood
10	chr3:141364000-141366000	Weak transcription	Fetal Intestine Large	intestine
11	chr3:141364000-141368400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
12	chr3:141364200-141365400	Weak transcription	Primary monocytes fromperipheralblood	blood
13	chr3:141364200-141365400	Weak transcription	Adipose Nuclei	Adipose
14	chr3:141364200-141365600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
15	chr3:141364200-141365600	Weak transcription	Fetal Intestine Small	intestine
16	chr3:141364200-141365600	Weak transcription	Placenta	Placenta
17	chr3:141364200-141366000	Weak transcription	Ovary	ovary
18	chr3:141364200-141369800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
19	chr3:141364400-141377600	Weak transcription	Aorta	Aorta

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links