Variant report

Variant	rs9346241
Chromosome Location	chr6:69488902-69488903
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: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	chr6:69344782..69345485-chr6:69488556..69489102,2	K562	blood:
2	chr6:69282204..69283004-chr6:69488215..69489132,4	MCF-7	breast:
3	chr6:69355188..69356834-chr6:69487220..69489411,2	MCF-7	breast:
4	chr6:69347821..69348854-chr6:69488207..69489105,5	MCF-7	breast:
5	chr6:69281088..69283265-chr6:69488145..69489862,2	K562	blood:
6	chr6:69488300..69490179-chr6:69492286..69495172,2	K562	blood:
7	chr6:69347891..69348910-chr6:69488069..69489147,9	K562	blood:
8	chr6:69449624..69452933-chr6:69485444..69489658,4	K562	blood:
9	chr6:69053685..69054306-chr6:69488036..69488952,2	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000230910	Chromatin interaction
ENSG00000135298	Chromatin interaction

Extended variants
information (count: 52 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:49)

rs_ID	r²[population]
rs1015152	0.97[ASN][1000 genomes]
rs11965496	0.98[ASN][1000 genomes]
rs1357618	0.89[ASN][1000 genomes]
rs1357619	0.98[ASN][1000 genomes]
rs1403927	0.90[YRI][hapmap];0.97[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1523937	0.98[ASN][1000 genomes]
rs1523941	0.92[ASN][1000 genomes]
rs1523947	0.92[ASN][1000 genomes]
rs1523948	0.98[ASN][1000 genomes]
rs2140510	0.98[ASN][1000 genomes]
rs2140511	0.98[ASN][1000 genomes]
rs2177448	0.98[ASN][1000 genomes]
rs2204285	1.00[ASN][1000 genomes]
rs2206834	1.00[ASN][1000 genomes]
rs2223724	1.00[ASN][1000 genomes]
rs6455299	0.95[ASN][1000 genomes]
rs6455302	0.86[YRI][hapmap];0.97[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6455303	0.98[ASN][1000 genomes]
rs6903692	0.85[ASN][1000 genomes]
rs6907661	0.98[ASN][1000 genomes]
rs6911395	0.98[ASN][1000 genomes]
rs6919103	0.98[ASN][1000 genomes]
rs6920537	0.98[ASN][1000 genomes]
rs6924533	0.89[ASN][1000 genomes]
rs6929378	1.00[ASN][1000 genomes]
rs7751539	0.94[ASN][1000 genomes]
rs7755356	1.00[ASN][1000 genomes]
rs7758017	0.98[ASN][1000 genomes]
rs7765583	0.97[ASN][1000 genomes]
rs7769724	1.00[ASN][1000 genomes]
rs7771494	0.89[ASN][1000 genomes]
rs7775093	0.98[ASN][1000 genomes]
rs9294807	1.00[ASN][1000 genomes]
rs9294810	0.98[ASN][1000 genomes]
rs9294811	0.97[ASN][1000 genomes]
rs9346239	0.90[YRI][hapmap];0.96[AFR][1000 genomes];0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9346240	0.90[YRI][hapmap];0.96[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9346243	0.82[YRI][hapmap];0.92[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9346245	0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9346246	0.97[ASN][1000 genomes]
rs9354800	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9360360	0.92[ASN][1000 genomes]
rs9360361	0.98[ASN][1000 genomes]
rs9446057	0.98[ASN][1000 genomes]
rs9446058	1.00[ASN][1000 genomes]
rs9454616	1.00[ASN][1000 genomes]
rs9454621	0.98[ASN][1000 genomes]
rs9454622	0.98[ASN][1000 genomes]
rs992784	0.98[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv886130	chr6:68950298-69531957	Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Weak transcription Bivalent Enhancer Bivalent/Poised TSS Active TSS Genic enhancers Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
2	nsv886131	chr6:69480628-69545903	Weak transcription Active TSS Flanking Active TSS Enhancers Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats	Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
3	nsv886132	chr6:69487204-69610281	Enhancers ZNF genes & repeats Weak transcription Active TSS Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer	Chromatin interactive region	3 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	chr6:69484800-69490000	Enhancers	Fetal Brain Female	brain
2	chr6:69485000-69490400	Enhancers	Cortex derived primary cultured neurospheres	brain
3	chr6:69486200-69489600	Enhancers	Fetal Lung	lung
4	chr6:69487600-69489000	Enhancers	Fetal Heart	heart
5	chr6:69487600-69489200	Active TSS	Brain Hippocampus Middle	brain
6	chr6:69487600-69489400	Enhancers	Fetal Stomach	stomach
7	chr6:69487600-69491200	Enhancers	Brain Germinal Matrix	brain
8	chr6:69487800-69490400	Enhancers	Fetal Brain Male	brain
9	chr6:69487800-69490600	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
10	chr6:69487800-69490600	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
11	chr6:69488000-69489200	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
12	chr6:69488000-69489200	Active TSS	Brain Inferior Temporal Lobe	brain
13	chr6:69488200-69489200	Active TSS	Brain Cingulate Gyrus	brain
14	chr6:69488200-69489200	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
15	chr6:69488400-69489000	Enhancers	K562	blood
16	chr6:69488400-69490000	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
17	chr6:69488600-69489200	Enhancers	Brain Angular Gyrus	brain
18	chr6:69488800-69489600	Flanking Active TSS	Brain Anterior Caudate	brain
19	chr6:69488800-69489600	Flanking Active TSS	Brain Substantia Nigra	brain

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