Variant report

Variant	rs6573909
Chromosome Location	chr14:70277900-70277901
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr14:70233121..70235370-chr14:70275423..70277973,2	MCF-7	breast:
2	chr14:70276572..70278716-chr14:70281212..70282765,2	MCF-7	breast:
3	chr14:70258156..70261059-chr14:70276205..70278349,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000100650	Chromatin interaction

Extended variants
information (count: 67 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:65)

rs_ID	r²[population]
rs10130926	1.00[JPT][hapmap];0.84[ASN][1000 genomes]
rs10136397	0.90[ASN][1000 genomes]
rs10136529	0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10142027	0.81[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs10142031	0.95[EUR][1000 genomes]
rs10142686	0.90[EUR][1000 genomes]
rs10143223	0.81[CEU][hapmap]
rs10146537	1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs10148404	0.90[ASN][1000 genomes]
rs10151895	0.96[CEU][hapmap];0.82[CHB][hapmap];0.94[EUR][1000 genomes]
rs10459536	0.83[AMR][1000 genomes];0.96[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs11620808	0.91[CHB][hapmap];1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs11622580	0.81[CHB][hapmap]
rs11622925	1.00[JPT][hapmap];0.86[ASN][1000 genomes]
rs11623262	0.86[ASN][1000 genomes]
rs11624523	0.96[CEU][hapmap];0.82[CHB][hapmap];0.83[GIH][hapmap];0.92[MEX][hapmap];1.00[TSI][hapmap];0.84[AMR][1000 genomes];0.96[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs11627012	0.92[ASN][1000 genomes]
rs11627089	0.90[ASN][1000 genomes]
rs11628423	0.89[CHB][hapmap];1.00[JPT][hapmap];0.92[ASN][1000 genomes]
rs11628546	0.91[CHB][hapmap];0.95[CHD][hapmap];1.00[JPT][hapmap];0.92[ASN][1000 genomes]
rs11628665	0.91[CHB][hapmap];1.00[JPT][hapmap];0.92[ASN][1000 genomes]
rs11629054	0.88[CEU][hapmap]
rs12431573	1.00[CEU][hapmap];0.92[CHB][hapmap];0.88[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.83[LWK][hapmap];1.00[TSI][hapmap];0.90[YRI][hapmap];0.89[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs13313365	0.90[ASN][1000 genomes]
rs13313366	0.90[ASN][1000 genomes]
rs13313388	0.82[AMR][1000 genomes];0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs14411	0.91[CHB][hapmap];0.95[CHD][hapmap];1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs17328	0.96[CEU][hapmap];0.92[CHB][hapmap];0.88[CHD][hapmap];0.83[GIH][hapmap];1.00[JPT][hapmap];0.96[MEX][hapmap];1.00[TSI][hapmap];0.88[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1953400	0.95[EUR][1000 genomes]
rs2148503	0.95[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2148505	0.80[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs2332167	0.96[CEU][hapmap];0.82[CHB][hapmap];0.83[GIH][hapmap];0.84[JPT][hapmap];0.92[MEX][hapmap];1.00[TSI][hapmap];0.85[AMR][1000 genomes];0.97[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs28437671	0.90[ASN][1000 genomes]
rs28480224	0.90[ASN][1000 genomes]
rs28490548	0.94[EUR][1000 genomes]
rs2877598	0.85[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs28785205	0.92[ASN][1000 genomes]
rs3104	0.96[CEU][hapmap];0.82[CHB][hapmap];0.83[GIH][hapmap];0.84[JPT][hapmap];0.92[MEX][hapmap];1.00[TSI][hapmap];0.95[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs3784152	0.91[CEU][hapmap];0.82[CHB][hapmap];0.81[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs3784153	0.96[CEU][hapmap];0.82[CHB][hapmap];0.83[JPT][hapmap];0.84[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs4646285	1.00[JPT][hapmap];0.86[ASN][1000 genomes]
rs4646286	0.96[CEU][hapmap];0.82[CHB][hapmap];1.00[JPT][hapmap];0.99[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs4646297	0.96[CEU][hapmap];0.82[CHB][hapmap];0.83[GIH][hapmap];0.92[MEX][hapmap];1.00[TSI][hapmap];0.81[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs4899313	0.84[JPT][hapmap];0.80[ASN][1000 genomes]
rs4902755	0.95[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs4902756	0.96[CEU][hapmap];0.92[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];0.99[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4902757	0.89[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs56177148	0.90[ASN][1000 genomes]
rs59066042	0.90[ASN][1000 genomes]
rs60442313	0.95[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs61356864	0.86[ASN][1000 genomes]
rs6573907	0.92[EUR][1000 genomes]
rs6573908	0.96[CEU][hapmap];0.82[CHB][hapmap];0.83[GIH][hapmap];0.92[MEX][hapmap];1.00[TSI][hapmap];0.95[EUR][1000 genomes]
rs7142868	0.95[CEU][hapmap];0.82[CHB][hapmap];0.92[EUR][1000 genomes]
rs7152290	0.86[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs7153496	0.96[CEU][hapmap];0.82[CHB][hapmap];0.83[GIH][hapmap];0.92[MEX][hapmap];1.00[TSI][hapmap];0.92[EUR][1000 genomes]
rs7154439	0.96[CEU][hapmap];0.83[GIH][hapmap];1.00[JPT][hapmap];0.92[MEX][hapmap];1.00[TSI][hapmap];0.99[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7160953	0.81[JPT][hapmap]
rs8005609	0.83[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs8010836	0.81[CHB][hapmap];0.83[JPT][hapmap]
rs8011311	0.84[AMR][1000 genomes];0.99[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs8013598	0.95[EUR][1000 genomes]
rs8014236	0.90[EUR][1000 genomes]
rs8021735	0.96[CEU][hapmap];0.92[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9944036	0.96[CEU][hapmap];0.82[CHB][hapmap];0.83[GIH][hapmap];0.92[MEX][hapmap];1.00[TSI][hapmap];0.85[AMR][1000 genomes];0.99[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	nsv456336	chr14:70081956-70574149	Enhancers Weak transcription Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Strong transcription Active TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	75 gene(s)	inside rSNPs	diseases
2	nsv565007	chr14:70081956-70574149	Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh Enhancers Strong transcription Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	75 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs6573909	MPP5	cis	cerebellum	SCAN

Chromatin state (count:8 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr14:70274000-70279200	Weak transcription	Hela-S3	cervix
2	chr14:70275400-70278200	Enhancers	Fetal Intestine Large	intestine
3	chr14:70275400-70280000	Enhancers	Liver	Liver
4	chr14:70275600-70278400	Enhancers	Placenta	Placenta
5	chr14:70276400-70278000	Enhancers	HepG2	liver
6	chr14:70276400-70278400	Weak transcription	Stomach Mucosa	stomach
7	chr14:70277800-70278400	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
8	chr14:70277800-70280200	Weak transcription	Fetal Intestine Small	intestine

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