Variant report

Variant	rs601778
Chromosome Location	chr8:61576519-61576520
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr8:61563979..61567563-chr8:61575798..61578846,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000254869	Chromatin interaction

Extended variants
information (count: 75 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:68)

rs_ID	r²[population]
rs10090193	0.83[AMR][1000 genomes];0.81[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs10098769	0.81[JPT][hapmap]
rs10102740	0.80[JPT][hapmap]
rs10808709	0.81[JPT][hapmap]
rs10957150	0.81[JPT][hapmap]
rs12681129	0.81[JPT][hapmap]
rs1319104	0.81[JPT][hapmap]
rs2054670	0.81[CEU][hapmap];1.00[CHB][hapmap];0.93[CHD][hapmap];0.89[GIH][hapmap];0.81[JPT][hapmap];0.83[MEX][hapmap];0.83[AMR][1000 genomes];0.81[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2272620	0.81[JPT][hapmap]
rs2272621	0.83[JPT][hapmap]
rs2326560	0.81[JPT][hapmap]
rs2326561	0.80[JPT][hapmap]
rs2326562	0.81[JPT][hapmap]
rs2326568	0.81[JPT][hapmap]
rs2326571	0.81[JPT][hapmap]
rs2625441	0.81[JPT][hapmap]
rs2625442	0.85[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2680296	0.90[CHB][hapmap];0.95[CHD][hapmap];0.83[GIH][hapmap];0.95[JPT][hapmap];0.80[TSI][hapmap];0.82[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2680297	0.81[CEU][hapmap];0.95[JPT][hapmap];0.84[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs2680298	0.85[CHB][hapmap];0.95[JPT][hapmap];0.84[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2875967	0.81[JPT][hapmap]
rs2875968	0.81[JPT][hapmap]
rs2875974	0.81[JPT][hapmap]
rs2930040	0.81[JPT][hapmap]
rs2981277	0.81[JPT][hapmap]
rs3735825	0.81[JPT][hapmap]
rs3735826	0.81[JPT][hapmap]
rs41420549	0.81[JPT][hapmap]
rs595255	0.81[JPT][hapmap]
rs597123	0.84[CEU][hapmap];0.88[CHD][hapmap];0.95[JPT][hapmap];0.93[TSI][hapmap];0.91[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs603035	0.81[JPT][hapmap]
rs605701	0.88[ASN][1000 genomes]
rs608740	0.90[CHB][hapmap];0.91[CHD][hapmap];0.90[JPT][hapmap];0.82[ASN][1000 genomes]
rs609264	0.85[CHB][hapmap];0.85[JPT][hapmap]
rs612558	0.95[JPT][hapmap]
rs615031	0.81[JPT][hapmap]
rs617434	0.81[CEU][hapmap];0.91[CHB][hapmap];0.81[JPT][hapmap];0.82[AMR][1000 genomes];0.81[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs618190	0.81[CEU][hapmap];0.91[CHB][hapmap];0.91[CHD][hapmap];0.89[GIH][hapmap];0.81[JPT][hapmap];0.82[AMR][1000 genomes];0.81[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs622755	0.81[CEU][hapmap];0.83[CHD][hapmap];0.86[JPT][hapmap];0.81[AMR][1000 genomes];0.81[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs623845	0.85[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs623917	0.90[CHB][hapmap];0.97[CHD][hapmap];0.86[GIH][hapmap];0.90[JPT][hapmap];0.87[TSI][hapmap];0.81[AMR][1000 genomes];0.84[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs625850	0.81[JPT][hapmap]
rs625979	0.81[CEU][hapmap];1.00[JPT][hapmap];0.82[TSI][hapmap];0.84[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs626913	0.81[CHB][hapmap];0.86[JPT][hapmap]
rs629268	0.81[JPT][hapmap]
rs629523	1.00[CEU][hapmap];0.95[JPT][hapmap];0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs645067	0.85[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs645765	0.82[AMR][1000 genomes];0.81[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs652422	0.81[JPT][hapmap]
rs657718	0.86[CHD][hapmap];0.95[JPT][hapmap];0.82[MEX][hapmap];0.88[ASN][1000 genomes]
rs658176	0.81[CEU][hapmap];0.88[CHD][hapmap];0.95[JPT][hapmap];0.87[TSI][hapmap];0.85[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs659805	0.82[ASN][1000 genomes]
rs665893	0.82[ASW][hapmap];0.81[CEU][hapmap];1.00[CHB][hapmap];0.93[CHD][hapmap];0.89[GIH][hapmap];0.81[JPT][hapmap];0.82[AMR][1000 genomes];0.81[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs669599	0.81[JPT][hapmap]
rs671204	0.85[JPT][hapmap];0.82[EUR][1000 genomes]
rs671576	1.00[CEU][hapmap];0.91[CHD][hapmap];0.84[GIH][hapmap];1.00[JPT][hapmap];0.96[MEX][hapmap];1.00[TSI][hapmap];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs673802	0.84[ASN][1000 genomes]
rs685985	0.86[ASN][1000 genomes]
rs686852	0.86[ASN][1000 genomes]
rs687978	0.81[JPT][hapmap]
rs6987084	0.81[JPT][hapmap]
rs6995515	0.81[JPT][hapmap]
rs7013249	0.81[JPT][hapmap]
rs7413	0.81[JPT][hapmap]
rs7822621	0.85[CHD][hapmap];0.95[JPT][hapmap];0.80[ASN][1000 genomes]
rs7829359	0.81[JPT][hapmap]
rs7839516	0.81[JPT][hapmap]
rs9643523	0.81[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv917756	chr8:60942299-61862796	Enhancers Weak transcription Active TSS Genic enhancers Bivalent/Poised TSS Strong transcription Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	74 gene(s)	inside rSNPs	diseases
2	nsv530383	chr8:61431756-61605551	Flanking Active TSS Active TSS Weak transcription Enhancers Genic enhancers Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	30 gene(s)	inside rSNPs	diseases
3	nsv831335	chr8:61497540-61688992	Weak transcription Strong transcription Flanking Active TSS Enhancers Bivalent Enhancer Active TSS Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	33 gene(s)	inside rSNPs	diseases
4	nsv890945	chr8:61522008-61707725	Weak transcription Genic enhancers Strong transcription Enhancers Flanking Active TSS Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	33 gene(s)	inside rSNPs	diseases
5	nsv824657	chr8:61555227-61626758	Enhancers Bivalent/Poised TSS Weak transcription Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	31 gene(s)	inside rSNPs	diseases
6	nsv824658	chr8:61561488-61612108	Enhancers Flanking Bivalent TSS/Enh Active TSS Weak transcription Flanking Active TSS Strong transcription Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	28 gene(s)	inside rSNPs	diseases
7	nsv1027929	chr8:61569620-61617812	Weak transcription Active TSS Enhancers Flanking Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs601778	RAB2A	Cis_1M	lymphoblastoid	RTeQTL

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr8:61573800-61577200	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links