Variant report

Variant	rs6097749
Chromosome Location	chr20:52672536-52672537
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr17:56735085..56736750-chr20:52671034..52672707,2	MCF-7	breast:
2	chr20:52638922..52641694-chr20:52671102..52673075,2	MCF-7	breast:
3	chr20:52556030..52560309-chr20:52671948..52677336,4	K562	blood:
4	chr20:52671848..52674033-chr20:55841179..55843003,2	MCF-7	breast:
5	chr20:52671492..52674058-chr20:55837796..55841174,3	MCF-7	breast:
6	chr20:52666267..52667791-chr20:52670697..52672738,2	K562	blood:

Variant related genes	Relation type
ENSG00000101144	Chromatin interaction
ENSG00000226308	Chromatin interaction
ENSG00000202077	Chromatin interaction
ENSG00000236352	Chromatin interaction

Extended variants
information (count: 46 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:44)

rs_ID	r²[population]
rs11905945	0.93[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs1381983	0.91[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs1381984	0.91[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs1557853	0.91[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs2072128	0.93[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs2107327	0.91[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs2189502	0.91[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs2214530	0.91[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs2276487	0.88[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs2276488	0.86[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs2276489	0.91[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs2276491	0.84[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs2299698	0.84[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2299699	0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2299701	0.91[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs2299702	0.93[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs2299705	0.87[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs2299707	0.88[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs2299711	0.86[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs2299712	0.88[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs2299715	0.93[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs2299718	0.88[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs2870304	0.86[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs34973146	0.84[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs35883829	0.91[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs6091807	0.84[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs6091811	0.86[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs6091812	0.91[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs6097745	0.98[ASN][1000 genomes]
rs6123345	0.93[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs6127058	0.90[EUR][1000 genomes]
rs6127060	0.88[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs6127061	0.86[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs6127062	0.88[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs6127063	0.93[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs6127065	0.91[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs6127066	0.81[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs6127068	0.86[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs6127072	0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6127073	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs67082409	0.88[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs71323984	0.88[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs73133436	0.89[EUR][1000 genomes]
rs732344	0.88[AMR][1000 genomes];0.91[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	esv34060	chr20:52251863-52702186	Flanking Active TSS Enhancers Weak transcription Active TSS Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA miRNA	296 gene(s)	inside rSNPs	diseases
2	nsv586224	chr20:52474850-53279490	Flanking Active TSS Weak transcription Enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Active TSS Bivalent/Poised TSS Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	338 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:5 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr20:52641600-52676400	Weak transcription	Stomach Mucosa	stomach
2	chr20:52645200-52682200	Weak transcription	Sigmoid Colon	Sigmoid Colon
3	chr20:52666400-52673000	Strong transcription	Rectal Mucosa Donor 29	rectum
4	chr20:52666600-52675200	Strong transcription	Rectal Mucosa Donor 31	rectum
5	chr20:52669400-52681800	Weak transcription	Gastric	stomach

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links