Variant report

Variant	rs13409842
Chromosome Location	chr2:188959126-188959127
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 34 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:27)

rs_ID	r²[population]
rs10178035	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10178200	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10186464	1.00[AFR][1000 genomes]
rs10206202	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs13382365	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs13390521	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs13392841	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs13394490	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs13395248	0.83[AFR][1000 genomes]
rs13395332	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs13396017	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs13396168	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs13399474	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs13409305	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs13410181	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs13415844	0.85[AFR][1000 genomes]
rs13419775	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs13424259	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs13425223	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs13428925	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28533081	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28796667	1.00[AMR][1000 genomes]
rs59158272	1.00[AFR][1000 genomes]
rs6721351	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6726657	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6747109	1.00[AFR][1000 genomes]
rs7579505	0.85[AFR][1000 genomes];1.00[AMR][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	nsv533353	chr2:188498301-189024655	Weak transcription Enhancers Bivalent Enhancer Active TSS Genic enhancers Transcr. at gene 5' and 3' Flanking Active TSS ZNF genes & repeats Strong transcription Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
2	nsv875602	chr2:188923773-189016215	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Strong transcription	Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
3	nsv875603	chr2:188923773-189025977	Active TSS Enhancers Weak transcription Transcr. at gene 5' and 3' Flanking Active TSS ZNF genes & repeats Strong transcription	Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
4	nsv584044	chr2:188928433-189016215	Enhancers Active TSS Weak transcription ZNF genes & repeats Flanking Active TSS Strong transcription	Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
5	nsv1002714	chr2:188934297-189025084	ZNF genes & repeats Weak transcription Enhancers Active TSS Flanking Active TSS Strong transcription	Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
6	nsv584045	chr2:188949715-189003106	Active TSS Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Strong transcription	Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
7	nsv875604	chr2:188957640-189043137	Enhancers Transcr. at gene 5' and 3' Strong transcription Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Bivalent Enhancer	Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:2 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:188944600-188988000	Weak transcription	HUES6 Cell Line	embryonic stem cell
2	chr2:188955600-188960000	Weak transcription	Fetal Lung	lung

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