Variant report

Variant	rs17473769
Chromosome Location	chr6:15684656-15684657
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:15683311..15685899-chr6:16128191..16130449,3	K562	blood:
2	chr6:15682633..15685781-chr6:15685826..15688802,3	K562	blood:
3	chr6:15683654..15685899-chr6:16128191..16130510,2	K562	blood:
4	chr6:15682033..15684824-chr6:15685357..15687470,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000007944	Chromatin interaction

Extended variants
information (count: 45 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:39)

rs_ID	r²[population]
rs11963843	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13192922	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs13199598	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs13206289	0.95[CEU][hapmap];0.82[YRI][hapmap];0.85[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs13206437	0.95[CEU][hapmap];0.85[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs13207538	1.00[CEU][hapmap];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs13213868	1.00[CEU][hapmap];0.85[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs13213990	0.85[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs17407828	1.00[CEU][hapmap];0.91[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs17408240	1.00[CEU][hapmap];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17473363	1.00[CEU][hapmap];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs17473553	1.00[CEU][hapmap];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs17473810	0.84[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs17473838	1.00[CEU][hapmap];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17473930	1.00[CEU][hapmap];0.88[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs34297195	0.88[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs34303993	0.92[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs34401957	0.80[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs34872116	0.83[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs35510319	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs35513974	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs57292248	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs61568456	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs67330366	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs67370907	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6906528	0.95[CEU][hapmap];0.83[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs6917701	0.85[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs6921842	0.88[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs6922764	0.93[CEU][hapmap];0.83[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs6922963	0.83[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs6937887	0.95[CEU][hapmap];0.83[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs6941398	0.95[CEU][hapmap];0.87[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs71554534	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs71554536	0.82[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs7741874	1.00[CEU][hapmap];0.83[YRI][hapmap];0.96[AFR][1000 genomes];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs7759904	0.83[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs7763446	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs7763614	0.93[CEU][hapmap];0.81[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs977746	1.00[CEU][hapmap];0.91[AMR][1000 genomes];0.96[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv428136	chr6:15595640-15781241	Enhancers Genic enhancers Weak transcription Active TSS Strong transcription Bivalent Enhancer ZNF genes & repeats Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
2	esv2755670	chr6:15624762-15736008	Flanking Active TSS Strong transcription Active TSS ZNF genes & repeats Enhancers Bivalent/Poised TSS Weak transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
3	esv2607475	chr6:15664805-15717086	Active TSS Bivalent Enhancer Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
4	esv2757157	chr6:15668867-15725478	Active TSS Bivalent Enhancer Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Bivalent/Poised TSS	Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
5	esv2759408	chr6:15668867-15725478	Flanking Active TSS Active TSS Enhancers Weak transcription ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS	Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
6	esv3692888	chr6:15675641-15694811	Flanking Active TSS Enhancers Weak transcription Bivalent Enhancer Active TSS Bivalent/Poised TSS	Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:15675800-15685000	Weak transcription	HUES48 Cell Line	embryonic stem cell
2	chr6:15675800-15685000	Weak transcription	iPS-18 Cell Line	embryonic stem cell
3	chr6:15682000-15685400	Enhancers	Primary hematopoietic stem cells short term culture	blood
4	chr6:15682800-15685400	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
5	chr6:15682800-15686800	Enhancers	Fetal Intestine Small	intestine
6	chr6:15683200-15685200	Enhancers	Stomach Mucosa	stomach
7	chr6:15683200-15687400	Enhancers	Fetal Intestine Large	intestine
8	chr6:15683800-15690400	Weak transcription	K562	blood
9	chr6:15684400-15686000	Weak transcription	Rectal Mucosa Donor 31	rectum
10	chr6:15684600-15689000	Weak transcription	Primary monocytes fromperipheralblood	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links