Variant report

Variant	rs6083436
Chromosome Location	chr20:24189364-24189365
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr20:24188959..24189575-chr20:24297258..24297884,2	MCF-7	breast:
2	chr20:23917874..23918575-chr20:24189095..24189921,2	MCF-7	breast:
3	chr20:24189074..24189575-chr20:24761714..24762521,2	MCF-7	breast:
4	chr20:24189062..24189921-chr20:24297244..24297772,2	MCF-7	breast:

Extended variants
information (count: 37 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:28)

rs_ID	r²[population]
rs55739770	0.91[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs56104572	0.82[EUR][1000 genomes]
rs59054030	0.82[EUR][1000 genomes]
rs59561448	0.82[EUR][1000 genomes]
rs6049555	0.82[EUR][1000 genomes]
rs6049556	0.82[EUR][1000 genomes]
rs6076205	0.91[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs6076214	0.83[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs6076217	0.83[AMR][1000 genomes]
rs6083438	0.91[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs6083439	0.82[EUR][1000 genomes]
rs6083441	0.91[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs6083449	0.91[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs6083452	0.91[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs6083463	0.82[EUR][1000 genomes]
rs6083464	0.82[EUR][1000 genomes]
rs6083465	0.83[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs6083467	0.83[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs6083473	0.83[AMR][1000 genomes]
rs6083480	0.83[AMR][1000 genomes]
rs6083484	0.83[AMR][1000 genomes]
rs6083486	0.83[AMR][1000 genomes]
rs6083487	0.83[AMR][1000 genomes]
rs6083488	0.83[AMR][1000 genomes]
rs6106813	0.82[EUR][1000 genomes]
rs73329997	0.91[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs73333779	0.82[EUR][1000 genomes]
rs73335617	0.82[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:9 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv9793	chr20:23939613-24734850	Bivalent Enhancer Enhancers Weak transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
2	esv3328348	chr20:24095746-24285830	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Active TSS Genic enhancers	TF binding region Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
3	nsv833945	chr20:24163437-24349462	Enhancers Active TSS Weak transcription ZNF genes & repeats Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers	TF binding region Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
4	esv3424784	chr20:24186452-24191250	Weak transcription Enhancers ZNF genes & repeats Genic enhancers Flanking Active TSS Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
5	esv3422848	chr20:24187502-24190300	Enhancers ZNF genes & repeats Genic enhancers Weak transcription Flanking Active TSS Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
6	esv3394664	chr20:24188832-24189407	ZNF genes & repeats Weak transcription Genic enhancers Enhancers	Chromatin interactive region	n/a	inside rSNPs	diseases
7	esv3409446	chr20:24188835-24189390	ZNF genes & repeats Weak transcription Genic enhancers Enhancers	Chromatin interactive region	n/a	inside rSNPs	diseases
8	esv3333065	chr20:24188898-24189407	Weak transcription ZNF genes & repeats Genic enhancers Enhancers	Chromatin interactive region	n/a	inside rSNPs	diseases
9	esv3387441	chr20:24188977-24189392	Enhancers Weak transcription ZNF genes & repeats Genic enhancers	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

Chromatin state (count:10 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr20:24188000-24192200	Weak transcription	HUES6 Cell Line	embryonic stem cell
2	chr20:24188400-24192200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
3	chr20:24188600-24189400	ZNF genes & repeats	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
4	chr20:24188600-24189600	ZNF genes & repeats	H9 Cell Line	embryonic stem cell
5	chr20:24188600-24190400	Weak transcription	Fetal Intestine Large	intestine
6	chr20:24188600-24190800	Weak transcription	Fetal Intestine Small	intestine
7	chr20:24188600-24192200	Weak transcription	HUES64 Cell Line	embryonic stem cell
8	chr20:24188800-24192600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
9	chr20:24189200-24189400	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
10	chr20:24189200-24192200	Weak transcription	H1 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links