Variant report

Variant	rs6458029
Chromosome Location	chr6:37775284-37775285
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:9)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

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

No.	Distal block	Cell Line	Cell type
1	chr6:37756505..37762867-chr6:37772774..37778127,6	MCF-7	breast:
2	chr6:37774211..37776209-chr6:37780376..37782205,2	MCF-7	breast:
3	chr6:37774109..37776209-chr6:37784418..37787142,2	K562	blood:
4	chr6:37773348..37778942-chr6:37784434..37789284,15	MCF-7	breast:
5	chr6:37771553..37779758-chr6:37784024..37789413,23	MCF-7	breast:
6	chr6:37761178..37763195-chr6:37774802..37776873,2	MCF-7	breast:
7	chr6:37773868..37777488-chr6:37778348..37782159,4	K562	blood:
8	chr6:37772786..37776209-chr6:37782926..37786197,4	K562	blood:
9	chr6:37774048..37775652-chr6:37787491..37789731,2	K562	blood:

No data

Variant related genes	Relation type
ENSG00000225945	Chromatin interaction
ENSG00000156639	Chromatin interaction

Extended variants
information (count: 40 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:38)

rs_ID	r²[population]
rs10456096	0.93[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs10485029	0.88[CHB][hapmap]
rs10807188	0.92[EUR][1000 genomes]
rs1187421	0.85[CEU][hapmap]
rs1187422	0.88[EUR][1000 genomes]
rs1187423	0.81[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs12192182	0.84[EUR][1000 genomes]
rs12198907	0.81[EUR][1000 genomes]
rs12200258	0.96[CEU][hapmap];0.88[CHB][hapmap]
rs12206818	0.83[EUR][1000 genomes]
rs12211248	0.88[CHB][hapmap];0.84[EUR][1000 genomes]
rs12211981	1.00[CEU][hapmap];0.88[CHB][hapmap];0.85[EUR][1000 genomes]
rs12213835	1.00[CEU][hapmap];0.88[CHB][hapmap];1.00[YRI][hapmap];0.84[EUR][1000 genomes]
rs13210701	1.00[CEU][hapmap];0.88[CHB][hapmap];0.85[EUR][1000 genomes]
rs1812599	0.83[EUR][1000 genomes]
rs2055206	0.85[CEU][hapmap]
rs2395686	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs259673	0.81[EUR][1000 genomes]
rs259679	0.80[CEU][hapmap]
rs259686	0.96[CEU][hapmap];0.88[CHB][hapmap]
rs259689	1.00[CEU][hapmap];0.88[CHB][hapmap]
rs259690	1.00[CEU][hapmap];0.88[CHB][hapmap]
rs259691	1.00[CEU][hapmap];0.88[CHB][hapmap]
rs259713	1.00[CEU][hapmap];0.88[CHB][hapmap];0.81[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs259715	0.81[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs259716	0.90[EUR][1000 genomes]
rs259718	0.80[CEU][hapmap]
rs2645107	0.96[CEU][hapmap];0.88[CHB][hapmap];0.86[JPT][hapmap]
rs2645116	0.96[CEU][hapmap];0.88[CHB][hapmap]
rs2842517	0.96[CEU][hapmap];0.88[CHB][hapmap];0.84[YRI][hapmap]
rs34871463	0.84[EUR][1000 genomes]
rs6458027	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs6458028	0.86[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs6941057	0.81[CEU][hapmap]
rs7755089	0.84[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs9296232	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs9394460	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs9647619	0.82[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1028825	chr6:37495154-38278320	Enhancers Active TSS Weak transcription Bivalent/Poised TSS Flanking Active TSS Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	19 gene(s)	inside rSNPs	diseases
2	nsv1024016	chr6:37567651-37981590	Weak transcription Enhancers Active TSS Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	14 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	chr6:37766400-37775400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
2	chr6:37767400-37775400	Weak transcription	Skeletal Muscle Female	skeletal muscle
3	chr6:37767400-37777000	Weak transcription	Right Atrium	heart
4	chr6:37769000-37775400	Weak transcription	Fetal Muscle Trunk	muscle
5	chr6:37769600-37776800	Weak transcription	Liver	Liver
6	chr6:37772600-37776800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
7	chr6:37773000-37776800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
8	chr6:37774200-37775400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
9	chr6:37774200-37775400	Weak transcription	Psoas Muscle	Psoas
10	chr6:37774600-37775600	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
11	chr6:37774600-37777400	Enhancers	Fetal Brain Male	brain
12	chr6:37774800-37776400	Enhancers	Fetal Brain Female	brain
13	chr6:37775000-37775800	Enhancers	Brain Germinal Matrix	brain
14	chr6:37775200-37775600	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
15	chr6:37775200-37775600	Enhancers	NHEK	skin
16	chr6:37775200-37775800	Enhancers	Esophagus	oesophagus
17	chr6:37775200-37776200	Enhancers	Brain Angular Gyrus	brain
18	chr6:37775200-37776200	Enhancers	Brain Inferior Temporal Lobe	brain
19	chr6:37775200-37777400	Enhancers	Fetal Kidney	kidney
20	chr6:37775200-37777400	Enhancers	Fetal Muscle Leg	muscle
21	chr6:37775200-37777400	Enhancers	HSMMtube	muscle
22	chr6:37775200-37777600	Enhancers	HMEC	breast

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