Variant report

Variant	rs2148007
Chromosome Location	chr6:28856450-28856451
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:28847771..28851189-chr6:28852484..28857224,5	MCF-7	breast:
2	chr6:28828478..28839935-chr6:28855092..28866386,31	K562	blood:
3	chr6:28844029..28846822-chr6:28855800..28857530,2	MCF-7	breast:
4	chr6:28853392..28856962-chr6:28946124..28948045,3	K562	blood:

Variant related genes	Relation type
ENSG00000225595	Chromatin interaction
ENSG00000213916	Chromatin interaction

Extended variants
information (count: 54 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:49)

rs_ID	r²[population]
rs10484543	0.81[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs1061625	0.82[ASN][1000 genomes]
rs172326	0.92[ASN][1000 genomes]
rs1794588	0.82[ASN][1000 genomes]
rs184094	0.86[ASN][1000 genomes]
rs2013652	0.81[ASN][1000 genomes]
rs209127	0.84[ASN][1000 genomes]
rs209140	0.90[ASN][1000 genomes]
rs209147	0.91[ASN][1000 genomes]
rs209151	0.86[AMR][1000 genomes];0.82[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs209165	0.89[ASN][1000 genomes]
rs209172	0.87[ASN][1000 genomes]
rs209177	0.88[ASN][1000 genomes]
rs209180	0.85[ASN][1000 genomes]
rs2097424	0.81[ASN][1000 genomes]
rs2269553	0.85[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs28381661	0.91[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs28381663	0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs28381666	0.85[EUR][1000 genomes]
rs28400868	0.81[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs28400869	0.81[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs28743260	0.90[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2894066	0.82[ASN][1000 genomes]
rs3132377	0.82[ASN][1000 genomes]
rs3135314	0.86[ASN][1000 genomes]
rs413972	0.82[AMR][1000 genomes];0.82[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs422331	0.87[ASN][1000 genomes]
rs429369	0.82[AMR][1000 genomes];0.82[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4484511	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6909419	0.80[AMR][1000 genomes];0.91[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs743847	0.89[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7750338	0.81[AMR][1000 genomes];0.82[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7763940	0.81[AMR][1000 genomes];0.91[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7769221	0.82[AMR][1000 genomes];0.82[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7776376	0.81[AMR][1000 genomes];0.91[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9257269	0.84[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9257270	0.81[AMR][1000 genomes];0.87[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9257274	0.87[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9257280	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9257281	0.88[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9257328	0.82[AMR][1000 genomes];0.82[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9257424	0.82[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs929042	0.80[AMR][1000 genomes];0.91[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9348814	0.81[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs9368576	0.81[AMR][1000 genomes];0.91[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9378149	0.81[AMR][1000 genomes];0.91[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9393932	0.81[AMR][1000 genomes];0.91[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9393933	0.81[AMR][1000 genomes];0.91[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9404976	0.81[AMR][1000 genomes];0.91[EUR][1000 genomes];0.89[ASN][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	nsv883518	chr6:28792477-28911802	Active TSS Strong transcription Flanking Bivalent TSS/Enh Flanking Active TSS Weak transcription Enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	56 gene(s)	inside rSNPs	diseases
2	nsv883519	chr6:28792477-28936556	Transcr. at gene 5' and 3' Genic enhancers Weak transcription Active TSS Strong transcription Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	57 gene(s)	inside rSNPs	diseases
3	nsv427748	chr6:28831888-28999434	Weak transcription Flanking Active TSS Enhancers Active TSS ZNF genes & repeats Strong transcription Bivalent/Poised TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	62 gene(s)	inside rSNPs	diseases
4	nsv601212	chr6:28833225-28893927	Flanking Active TSS Weak transcription Enhancers Active TSS Genic enhancers Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	47 gene(s)	inside rSNPs	diseases
5	nsv462667	chr6:28834646-28893927	Active TSS Transcr. at gene 5' and 3' Weak transcription Enhancers Bivalent/Poised TSS Genic enhancers Strong transcription Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	47 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:3 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:28849400-28863000	Weak transcription	Right Atrium	heart
2	chr6:28853400-28863000	Weak transcription	Fetal Kidney	kidney
3	chr6:28856400-28857600	Enhancers	K562	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links