Variant report

Variant	rs12662460
Chromosome Location	chr6:34394401-34394402
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:4)
CpG islands
(count:0)
Chromatin interactive
region (count:10)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

(count:4 , 50 per page) page: 1

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	HCFC1	chr6:34393617-34394450	Hela-S3	cervix:	n/a	n/a
2	MXI1	chr6:34392890-34394414	IMR90	lung:	n/a	n/a
3	MXI1	chr6:34392442-34394496	SK-N-SH	brain:	n/a	n/a
4	REST	chr6:34392973-34394432	H1-neurons	neurons:	n/a	chr6:34393856-34393866

No data

(count:10 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr6:34209798..34218235-chr6:34387971..34396103,20	K562	blood:
2	chr6:34203584..34206226-chr6:34392090..34394590,2	K562	blood:
3	chr6:34357967..34362826-chr6:34390808..34395314,8	K562	blood:
4	chr6:34391617..34394715-chr6:34431838..34435722,3	MCF-7	breast:
5	chr11:46449218..46452238-chr6:34392341..34394490,5	MCF-7	breast:
6	chr6:34392408..34394621-chr6:34663502..34666102,2	K562	blood:
7	chr6:34358853..34362255-chr6:34392162..34395391,9	MCF-7	breast:
8	chr6:34203686..34207490-chr6:34388234..34395019,9	K562	blood:
9	chr6:34392840..34394590-chr6:34855825..34858514,2	K562	blood:
10	chr6:32936292..32939162-chr6:34392465..34394663,2	MCF-7	breast:

No data

Variant related genes	Relation type
RPS10-NUDT3	TF binding region
RPS10	TF binding region
ENSG00000272288	Chromatin interaction
ENSG00000064995	Chromatin interaction
ENSG00000124507	Chromatin interaction
ENSG00000186577	Chromatin interaction
ENSG00000196821	Chromatin interaction
ENSG00000244313	Chromatin interaction
ENSG00000204257	Chromatin interaction
ENSG00000137309	Chromatin interaction
ENSG00000204256	Chromatin interaction
ENSG00000223837	Chromatin interaction
ENSG00000272325	Chromatin interaction
ENSG00000064999	Chromatin interaction

Extended variants
information (count: 37 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:33)

rs_ID	r²[population]
rs12664001	0.86[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs12664016	0.83[ASN][1000 genomes]
rs12665397	0.91[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs16889706	0.86[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs16889714	0.86[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs28847046	0.82[ASN][1000 genomes]
rs34384951	0.86[ASN][1000 genomes]
rs3778077	0.89[ASN][1000 genomes]
rs3798562	0.89[ASN][1000 genomes]
rs3798564	0.93[ASN][1000 genomes]
rs3800476	0.85[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs3800477	0.85[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs4295465	0.81[AMR][1000 genomes]
rs4711390	0.83[ASN][1000 genomes]
rs4713772	0.85[ASN][1000 genomes]
rs4713773	0.86[ASN][1000 genomes]
rs4713774	0.88[ASN][1000 genomes]
rs4713775	0.86[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs4713776	0.86[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs4713777	0.90[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs4713780	0.89[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs4713781	0.90[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs4713783	0.86[AMR][1000 genomes]
rs4713787	0.87[AMR][1000 genomes]
rs58648597	0.93[ASN][1000 genomes]
rs59310759	0.86[ASN][1000 genomes]
rs60100381	0.86[ASN][1000 genomes]
rs61582147	0.82[AMR][1000 genomes]
rs6925243	0.83[ASN][1000 genomes]
rs6935129	0.85[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs7767431	0.84[ASN][1000 genomes]
rs7775635	0.82[ASN][1000 genomes]
rs9766229	0.88[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1022844	chr6:34317219-35060519	Weak transcription Genic enhancers Enhancers Active TSS Flanking Active TSS Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	67 gene(s)	inside rSNPs	diseases
2	nsv538195	chr6:34317219-35060519	Enhancers Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' Weak transcription Genic enhancers Active TSS Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	67 gene(s)	inside rSNPs	diseases
3	esv2758046	chr6:34382492-34714677	Genic enhancers Enhancers Active TSS Strong transcription Weak transcription Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	37 gene(s)	inside rSNPs	diseases
4	esv2759418	chr6:34382492-34714677	Weak transcription Enhancers Active TSS Strong transcription Flanking Active TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	37 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:23 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:34392800-34394600	Active TSS	Breast Myoepithelial Primary Cells	Breast
2	chr6:34392800-34394600	Active TSS	Rectal Smooth Muscle	rectum
3	chr6:34393400-34394600	Active TSS	Duodenum Mucosa	Duodenum
4	chr6:34393600-34394800	Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
5	chr6:34394200-34394600	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
6	chr6:34394200-34394600	Enhancers	Primary T helper naive cells from peripheral blood	blood
7	chr6:34394200-34394600	Enhancers	Fetal Muscle Trunk	muscle
8	chr6:34394200-34409200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
9	chr6:34394400-34394600	Enhancers	Primary monocytes fromperipheralblood	blood
10	chr6:34394400-34394600	Enhancers	Primary neutrophils fromperipheralblood	blood
11	chr6:34394400-34394600	Enhancers	Primary B cells from cord blood	blood
12	chr6:34394400-34394600	Enhancers	Primary B cells from peripheral blood	blood
13	chr6:34394400-34394600	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
14	chr6:34394400-34394600	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
15	chr6:34394400-34394600	Enhancers	Placenta	Placenta
16	chr6:34394400-34394600	Enhancers	Rectal Mucosa Donor 29	rectum
17	chr6:34394400-34394600	Enhancers	Dnd41	blood
18	chr6:34394400-34394600	Enhancers	Monocytes-CD14+_RO01746	blood
19	chr6:34394400-34394800	Enhancers	Primary T cells fromperipheralblood	blood
20	chr6:34394400-34394800	Enhancers	Primary T regulatory cells fromperipheralblood	blood
21	chr6:34394400-34394800	Enhancers	K562	blood
22	chr6:34394400-34396800	Weak transcription	HepG2	liver
23	chr6:34394400-34433200	Weak transcription	Right Atrium	heart

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