Variant report

Variant	rs11759611
Chromosome Location	chr6:150411442-150411443
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:150410116..150412744-chr6:150428842..150431815,2	K562	blood:
2	chr6:150410347..150413118-chr6:150413236..150416818,3	MCF-7	breast:

Extended variants
information (count: 44 )
Associated
traits (count: 2 )

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

rs_ID	r²[population]
rs11754434	0.88[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11754488	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11755079	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11756904	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11756945	0.89[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1194970	0.88[ASN][1000 genomes]
rs13201209	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs13216978	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1748295	0.84[AMR][1000 genomes];0.91[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs35742354	0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs470138	0.81[CEU][hapmap]
rs489664	0.90[ASN][1000 genomes]
rs491336	0.92[ASN][1000 genomes]
rs67804438	0.90[AMR][1000 genomes];0.85[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs682942	0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs683002	0.81[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7738164	0.87[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7753353	0.87[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7765587	0.87[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7767719	0.80[EUR][1000 genomes]
rs789819	0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs789820	0.91[AMR][1000 genomes];0.88[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs789821	0.92[AMR][1000 genomes];0.88[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs789822	0.92[AMR][1000 genomes];0.88[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs789823	0.88[AMR][1000 genomes];0.90[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs789824	0.82[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs789825	0.80[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs789826	0.82[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs789827	0.82[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs789828	0.82[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs789829	0.82[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs806072	0.86[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9322242	0.84[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs9322243	0.83[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs9371701	0.84[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs9383663	0.80[EUR][1000 genomes]
rs9397624	0.80[EUR][1000 genomes]
rs9479513	0.81[GIH][hapmap]
rs9479622	0.83[AMR][1000 genomes];0.80[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv517022	chr6:150145001-150426272	Bivalent Enhancer Weak transcription Flanking Bivalent TSS/Enh Strong transcription Enhancers Bivalent/Poised TSS Active TSS Flanking Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	39 gene(s)	inside rSNPs	diseases
2	nsv886770	chr6:150395424-150499889	Enhancers Genic enhancers ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Active TSS Weak transcription Flanking Active TSS Strong transcription	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
3	nsv1016239	chr6:150407607-150424171	Flanking Active TSS Enhancers Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Active TSS	Chromatin interactive region	n/a	inside rSNPs	n/a
4	nsv1024915	chr6:150407607-150425510	Weak transcription Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Active TSS	Chromatin interactive region	n/a	inside rSNPs	n/a
5	nsv886771	chr6:150411442-150437749	Enhancers Flanking Active TSS Bivalent Enhancer Weak transcription Flanking Bivalent TSS/Enh ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs11759611	RAB32	cis	cerebellum	SCAN
rs11759611	UST	cis	cerebellum	SCAN

Chromatin state (count:15 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:150408800-150412400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
2	chr6:150409000-150412400	Weak transcription	HMEC	breast
3	chr6:150409000-150412600	Weak transcription	NHEK	skin
4	chr6:150409000-150413800	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
5	chr6:150410000-150412400	Weak transcription	Brain Angular Gyrus	brain
6	chr6:150410200-150411600	Weak transcription	Brain Hippocampus Middle	brain
7	chr6:150410200-150412400	Weak transcription	Brain Cingulate Gyrus	brain
8	chr6:150410200-150412600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
9	chr6:150410400-150411600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
10	chr6:150410400-150411600	Weak transcription	Brain Inferior Temporal Lobe	brain
11	chr6:150410400-150412400	Weak transcription	Brain Anterior Caudate	brain
12	chr6:150410400-150421800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
13	chr6:150410600-150412400	Weak transcription	Cortex derived primary cultured neurospheres	brain
14	chr6:150410600-150414400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
15	chr6:150411400-150413000	Enhancers	Brain Substantia Nigra	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links