Variant report

Variant	rs58952294
Chromosome Location	chr19:36184643-36184644
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:15)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:15 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr11:62559075..62559795-chr19:36184076..36184862,2	NB4	blood:
2	chr19:36184372..36185301-chr19:36310613..36311702,6	K562	blood:
3	chr19:36184365..36185469-chr19:36207271..36208713,26	K562	blood:
4	chr19:36184326..36185624-chr19:36206337..36208829,45	MCF-7	breast:
5	chr19:36184634..36185214-chr19:36373087..36373630,2	MCF-7	breast:
6	chr19:36184467..36185236-chr19:36193340..36194279,2	MCF-7	breast:
7	chr19:36184355..36185390-chr19:36422209..36423187,11	K562	blood:
8	chr19:36184431..36185252-chr19:36310666..36311379,3	MCF-7	breast:
9	chr19:36183210..36186350-chr19:36190384..36192650,3	K562	blood:
10	chr19:36184398..36185696-chr19:36206796..36208519,15	MCF-7	breast:
11	chr19:35986002..35986928-chr19:36184353..36185285,2	K562	blood:
12	chr19:36184393..36185382-chr19:36422317..36423468,4	MCF-7	breast:
13	chr19:36184588..36185432-chr19:36310650..36311616,2	MCF-7	breast:
14	chr19:36184387..36185171-chr19:36336007..36336944,2	K562	blood:
15	chr19:36183040..36186694-chr19:36206545..36210008,7	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000272333	Chromatin interaction
ENSG00000168569	Chromatin interaction
ENSG00000161270	Chromatin interaction
ENSG00000188508	Chromatin interaction

Extended variants
information (count: 64 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:57)

rs_ID	r²[population]
rs16970649	0.86[AFR][1000 genomes];0.93[EUR][1000 genomes]
rs17776834	0.97[AFR][1000 genomes];0.91[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs2227278	0.81[AFR][1000 genomes];0.83[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs2234360	0.86[AFR][1000 genomes];0.83[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs2234375	0.81[AFR][1000 genomes];0.83[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs2267585	0.91[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs2267586	0.91[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs2285420	0.91[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs2311873	0.83[AMR][1000 genomes]
rs2871893	0.88[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs2871894	0.85[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs34562867	0.83[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs3817622	0.86[AFR][1000 genomes];0.83[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs3893069	0.81[AFR][1000 genomes];0.83[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs41361648	0.83[AMR][1000 genomes]
rs4580318	0.83[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs4992668	0.81[AFR][1000 genomes];0.83[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs56849855	0.92[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs57180990	0.91[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs58142685	0.81[AFR][1000 genomes]
rs58255615	0.81[AFR][1000 genomes];0.83[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs58496446	0.88[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs60264154	0.80[AMR][1000 genomes]
rs61254015	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61351824	0.81[AFR][1000 genomes];0.83[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs61375471	0.88[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs73590543	0.97[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73590544	0.81[AFR][1000 genomes];0.94[AMR][1000 genomes];0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs73590559	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73590561	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs73590564	0.96[EUR][1000 genomes]
rs73590568	0.86[AFR][1000 genomes];0.83[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs73590576	0.81[AFR][1000 genomes];0.96[EUR][1000 genomes]
rs73590585	0.83[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs73590591	0.81[AFR][1000 genomes];0.83[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs73590598	0.86[AFR][1000 genomes];0.83[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs73592416	0.81[AFR][1000 genomes];0.83[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs73599271	0.85[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs73599272	0.85[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs73599274	0.83[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs73599279	0.83[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs73599281	0.85[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs73599286	0.91[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs73599289	0.91[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs73600880	0.91[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs73600881	0.91[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs73600885	0.91[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs73600892	0.86[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs73600893	0.91[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs73600899	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs73602803	0.91[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs73602804	0.91[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs73602806	0.91[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs73602823	1.00[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73602827	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs73602832	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73602833	0.97[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes]

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	nsv432045	chr19:35556260-36520760	Flanking Active TSS Enhancers Active TSS Weak transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Strong transcription Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	191 gene(s)	inside rSNPs	diseases
2	nsv543995	chr19:36139204-36203592	Weak transcription Bivalent Enhancer Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Active TSS Enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	28 gene(s)	inside rSNPs	diseases
3	nsv911630	chr19:36149761-36290977	Enhancers Active TSS Weak transcription Genic enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Strong transcription Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	69 gene(s)	inside rSNPs	diseases
4	nsv458566	chr19:36156588-36265508	Enhancers Transcr. at gene 5' and 3' Active TSS Flanking Bivalent TSS/Enh Weak transcription Flanking Active TSS Strong transcription Genic enhancers Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	58 gene(s)	inside rSNPs	diseases
5	nsv579422	chr19:36156588-36265508	Strong transcription Weak transcription Active TSS Transcr. at gene 5' and 3' Flanking Active TSS Enhancers Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	58 gene(s)	inside rSNPs	diseases
6	nsv911631	chr19:36169285-36290977	Flanking Active TSS Enhancers Active TSS Weak transcription Strong transcription Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	66 gene(s)	inside rSNPs	diseases
7	nsv911632	chr19:36174176-36288297	Strong transcription Active TSS Flanking Active TSS Enhancers Weak transcription Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	66 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr19:36179200-36192800	Weak transcription	Right Atrium	heart
2	chr19:36183000-36193000	Weak transcription	Placenta Amnion	Placenta Amnion
3	chr19:36184200-36185400	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
4	chr19:36184400-36184800	Enhancers	Brain Cingulate Gyrus	brain
5	chr19:36184400-36184800	Enhancers	Placenta	Placenta
6	chr19:36184400-36185000	Enhancers	ES-WA7 Cell Line	embryonic stem cell
7	chr19:36184400-36185000	Active TSS	Foreskin Fibroblast Primary Cells skin02	Skin
8	chr19:36184400-36185400	Enhancers	Dnd41	blood
9	chr19:36184600-36185000	Active TSS	Brain Inferior Temporal Lobe	brain
10	chr19:36184600-36185200	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links