Variant report

Variant	rs17408240
Chromosome Location	chr6:15687429-15687430
allele	C/T
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:8)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:8 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr6:15682033..15684824-chr6:15685357..15687470,3	MCF-7	breast:
2	chr6:15684844..15687441-chr6:15880155..15881679,2	K562	blood:
3	chr6:15686130..15687986-chr6:16130553..16132331,2	MCF-7	breast:
4	chr6:15682633..15685781-chr6:15685826..15688802,3	K562	blood:
5	chr6:15687375..15689354-chr6:15694199..15696327,2	MCF-7	breast:
6	chr6:15686282..15689020-chr6:16128019..16129871,2	K562	blood:
7	chr6:15687288..15693257-chr6:16127517..16131016,8	K562	blood:
8	chr6:15686242..15688880-chr6:15691006..15692946,2	K562	blood:

No data

Variant related genes	Relation type
ENSG00000007944	Chromatin interaction

Extended variants
information (count: 47 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:40)

rs_ID	r²[population]
rs11963843	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13192922	0.93[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs13199598	0.93[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs13206289	0.95[CEU][hapmap];0.89[EUR][1000 genomes]
rs13206437	0.95[CEU][hapmap];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];0.90[EUR][1000 genomes]
rs13213990	0.90[EUR][1000 genomes]
rs17407828	1.00[CEU][hapmap];0.88[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs17473363	1.00[CEU][hapmap];0.85[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs17473553	1.00[CEU][hapmap];0.85[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs17473769	1.00[CEU][hapmap];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17473810	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs17473838	1.00[CEU][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17473930	1.00[CEU][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs34297195	0.84[AFR][1000 genomes];0.98[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs34303993	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs34401957	0.84[EUR][1000 genomes]
rs34872116	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs35510319	0.93[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs35513974	0.93[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs55799119	0.86[AMR][1000 genomes]
rs57292248	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs61568456	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs67330366	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs67370907	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6906528	0.95[CEU][hapmap];0.93[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs6917701	0.95[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs6921842	0.84[AFR][1000 genomes];0.98[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs6922764	0.94[CEU][hapmap];0.80[YRI][hapmap];0.81[AFR][1000 genomes];0.93[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs6922963	0.81[AFR][1000 genomes];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs6937887	0.95[CEU][hapmap];0.93[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs6941398	0.95[CEU][hapmap];0.88[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs71554534	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs71554536	0.84[EUR][1000 genomes]
rs7741874	1.00[CEU][hapmap];0.85[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs7759904	0.93[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs7763446	0.93[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs7763614	0.94[CEU][hapmap];0.91[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs977746	1.00[CEU][hapmap];0.88[AMR][1000 genomes];0.96[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 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
7	nsv433377	chr6:15686225-15713759	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS	Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:9 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:15683800-15690400	Weak transcription	K562	blood
2	chr6:15684600-15689000	Weak transcription	Primary monocytes fromperipheralblood	blood
3	chr6:15685200-15690600	Weak transcription	Stomach Mucosa	stomach
4	chr6:15685400-15688200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
5	chr6:15685400-15690400	Weak transcription	Primary hematopoietic stem cells short term culture	blood
6	chr6:15686800-15689600	Weak transcription	Rectal Mucosa Donor 31	rectum
7	chr6:15686800-15690000	Weak transcription	Fetal Intestine Small	intestine
8	chr6:15686800-15690400	Weak transcription	Rectal Mucosa Donor 29	rectum
9	chr6:15686800-15690800	Weak transcription	Fetal Thymus	thymus

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