Variant report

Variant	rs9462435
Chromosome Location	chr6:38462063-38462064
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:38201636..38202567-chr6:38461455..38462314,3	MCF-7	breast:
2	chr6:38202043..38202593-chr6:38461632..38462300,2	MCF-7	breast:
3	chr6:38461115..38463494-chr6:38466391..38469115,2	MCF-7	breast:
4	chr20:20499042..20499742-chr6:38461690..38462233,2	MCF-7	breast:
5	chr16:78268800..78269308-chr6:38461719..38462384,2	K562	blood:

Extended variants
information (count: 18 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:14)

rs_ID	r²[population]
rs12200371	1.00[CEU][hapmap]
rs12662621	0.83[CEU][hapmap];0.83[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs13199426	0.92[CEU][hapmap];0.91[EUR][1000 genomes]
rs13206272	0.81[EUR][1000 genomes]
rs13215683	0.83[EUR][1000 genomes]
rs13218556	0.82[EUR][1000 genomes]
rs13220921	0.83[EUR][1000 genomes]
rs6900510	0.92[CEU][hapmap];0.86[EUR][1000 genomes]
rs71544422	0.91[EUR][1000 genomes]
rs9462434	0.81[EUR][1000 genomes]
rs9470878	0.92[CEU][hapmap];0.84[EUR][1000 genomes]
rs9470879	0.92[CEU][hapmap];0.83[EUR][1000 genomes]
rs9470884	0.92[CEU][hapmap];0.91[EUR][1000 genomes]
rs9470887	1.00[CEU][hapmap];0.99[EUR][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	nsv1021991	chr6:37893949-38738720	Weak transcription Enhancers Strong transcription Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Active TSS Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
2	nsv885817	chr6:38036420-39019503	Enhancers Weak transcription Flanking Active TSS Bivalent/Poised TSS Strong transcription Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	26 gene(s)	inside rSNPs	diseases
3	nsv534620	chr6:38049585-38602064	Enhancers Strong transcription Weak transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
4	nsv885820	chr6:38166511-38468887	Weak transcription Enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Active TSS Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:27 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:38444600-38496200	Weak transcription	Primary T cells fromperipheralblood	blood
2	chr6:38450600-38469800	Weak transcription	HSMMtube	muscle
3	chr6:38451600-38471000	Weak transcription	Psoas Muscle	Psoas
4	chr6:38452400-38496600	Weak transcription	Primary B cells from cord blood	blood
5	chr6:38454400-38486400	Weak transcription	Primary T cells from cord blood	blood
6	chr6:38460000-38464600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
7	chr6:38460200-38462800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
8	chr6:38460800-38473000	Enhancers	Brain Germinal Matrix	brain
9	chr6:38461000-38462200	Enhancers	HUES64 Cell Line	embryonic stem cell
10	chr6:38461000-38462200	Enhancers	Cortex derived primary cultured neurospheres	brain
11	chr6:38461000-38462200	Enhancers	Fetal Brain Male	brain
12	chr6:38461000-38467800	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
13	chr6:38461200-38462200	Enhancers	HUES48 Cell Line	embryonic stem cell
14	chr6:38461200-38462400	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
15	chr6:38461200-38467000	Enhancers	Brain Angular Gyrus	brain
16	chr6:38461200-38467400	Enhancers	Brain Substantia Nigra	brain
17	chr6:38461400-38463200	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
18	chr6:38461600-38462200	Enhancers	iPS-15b Cell Line	embryonic stem cell
19	chr6:38461600-38462200	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
20	chr6:38461600-38462600	Enhancers	Liver	Liver
21	chr6:38461600-38462800	Weak transcription	Brain Cingulate Gyrus	brain
22	chr6:38461600-38462800	Weak transcription	Brain Hippocampus Middle	brain
23	chr6:38461800-38463000	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
24	chr6:38461800-38463000	Weak transcription	Brain Inferior Temporal Lobe	brain
25	chr6:38461800-38463200	Weak transcription	GM12878-XiMat	blood
26	chr6:38461800-38464000	Weak transcription	Brain Anterior Caudate	brain
27	chr6:38461800-38464600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links