Variant report

Variant	rs6589766
Chromosome Location	chr11:119483293-119483294
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr11:119476943..119479967-chr11:119481875..119486010,4	K562	blood:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-PVRL1-1	chr11:119478390-119486120	XLOC_009577

Variant related genes	Relation type
ENSG00000254561	Chromatin interaction

Extended variants
information (count: 43 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:42)

rs_ID	r²[population]
rs10790322	0.81[EUR][1000 genomes]
rs10892411	0.81[ASN][1000 genomes]
rs10892419	0.80[EUR][1000 genomes]
rs10892420	0.85[CHB][hapmap];0.90[JPT][hapmap];0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs11217344	0.81[EUR][1000 genomes]
rs11217350	0.81[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs12417207	0.80[EUR][1000 genomes]
rs12797305	0.90[EUR][1000 genomes]
rs12798473	0.88[EUR][1000 genomes]
rs1567376	0.84[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs1567377	0.87[AMR][1000 genomes];0.96[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1567378	0.94[EUR][1000 genomes]
rs2271249	0.91[CEU][hapmap];0.86[CHB][hapmap];0.92[EUR][1000 genomes]
rs2271250	0.90[CEU][hapmap];0.90[CHB][hapmap];0.92[EUR][1000 genomes]
rs2887245	0.81[ASN][1000 genomes]
rs3751020	0.91[CEU][hapmap];0.91[JPT][hapmap];0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs4245196	0.91[JPT][hapmap];0.80[EUR][1000 genomes]
rs4328225	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs4354701	0.81[CEU][hapmap];0.82[CHB][hapmap]
rs4367956	0.96[CEU][hapmap];0.95[EUR][1000 genomes]
rs4499013	0.86[CHB][hapmap];0.85[ASN][1000 genomes]
rs4500497	0.81[AMR][1000 genomes];0.96[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs4514434	0.88[CEU][hapmap];0.82[CHB][hapmap];0.94[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs4519102	0.92[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs4581455	0.95[EUR][1000 genomes]
rs4936488	0.91[CEU][hapmap];0.86[CHB][hapmap];0.92[EUR][1000 genomes]
rs4938691	0.92[CEU][hapmap];0.91[EUR][1000 genomes]
rs4938692	0.90[EUR][1000 genomes]
rs4938693	0.90[EUR][1000 genomes]
rs4938694	0.89[EUR][1000 genomes]
rs4938695	0.89[EUR][1000 genomes]
rs6589764	0.81[EUR][1000 genomes]
rs7117705	0.94[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7130031	0.93[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7935369	0.85[CHB][hapmap];0.97[EUR][1000 genomes]
rs7935488	0.95[CEU][hapmap];0.85[CHB][hapmap];0.97[EUR][1000 genomes]
rs7949154	0.96[CEU][hapmap];0.91[CHB][hapmap];0.97[EUR][1000 genomes]
rs7951065	0.88[EUR][1000 genomes]
rs7951484	0.80[CEU][hapmap];0.89[EUR][1000 genomes]
rs871800	0.85[CEU][hapmap];0.83[CHB][hapmap];0.91[JPT][hapmap]
rs884395	0.84[CEU][hapmap];0.83[CHB][hapmap];0.91[JPT][hapmap]
rs906820	0.91[JPT][hapmap];0.80[EUR][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1042460	chr11:119430954-119540452	Enhancers Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh Strong transcription Bivalent Enhancer Active TSS Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:16 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:119471800-119485800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr11:119475600-119484000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
3	chr11:119479200-119485200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
4	chr11:119479600-119484800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
5	chr11:119479800-119483600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
6	chr11:119479800-119483600	Weak transcription	Brain Anterior Caudate	brain
7	chr11:119479800-119485000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
8	chr11:119480000-119483400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
9	chr11:119480000-119483600	Weak transcription	Brain Angular Gyrus	brain
10	chr11:119480000-119483600	Weak transcription	Brain Cingulate Gyrus	brain
11	chr11:119480000-119483800	Weak transcription	Brain Inferior Temporal Lobe	brain
12	chr11:119480000-119486000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
13	chr11:119480400-119485800	Weak transcription	Pancreas	Pancrea
14	chr11:119482000-119483600	Weak transcription	Brain Hippocampus Middle	brain
15	chr11:119482600-119483600	Weak transcription	Brain Substantia Nigra	brain
16	chr11:119482600-119488600	Weak transcription	Right Atrium	heart

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