Variant report

Variant	rs280739
Chromosome Location	chr2:35099776-35099777
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 29 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:17)

rs_ID	r²[population]
rs185784	0.83[EUR][1000 genomes]
rs280735	0.91[AFR][1000 genomes];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs280736	0.83[AMR][1000 genomes]
rs280737	0.82[AFR][1000 genomes];0.93[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs280738	0.93[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs280740	0.89[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs280741	0.81[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs280742	0.96[AFR][1000 genomes];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs280743	0.92[EUR][1000 genomes]
rs280744	0.82[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs280745	0.94[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs280749	0.84[AFR][1000 genomes];0.90[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs280757	0.81[CEU][hapmap]
rs280776	0.82[EUR][1000 genomes]
rs280777	0.82[EUR][1000 genomes]
rs280778	0.83[EUR][1000 genomes]
rs280782	0.83[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:12 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv873821	chr2:34738616-35416075	Enhancers Weak transcription Active TSS Strong transcription Genic enhancers Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
2	nsv1003361	chr2:34746445-35202302	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
3	nsv873825	chr2:34892832-35115848	Enhancers Active TSS Weak transcription ZNF genes & repeats Strong transcription Flanking Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
4	nsv1003322	chr2:34898412-35216795	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
5	nsv873833	chr2:35022419-35115848	Enhancers Active TSS Weak transcription Flanking Active TSS	TF binding region Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
6	esv1837864	chr2:35030699-35115979	Enhancers Weak transcription Active TSS Flanking Active TSS	TF binding region Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
7	nsv873834	chr2:35037733-35138518	Weak transcription Enhancers Active TSS Flanking Active TSS	TF binding region Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
8	nsv428030	chr2:35051843-35286924	Enhancers Active TSS Weak transcription Flanking Active TSS Genic enhancers	TF binding region Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
9	nsv1010722	chr2:35072575-35950219	Strong transcription Enhancers Weak transcription ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	8 gene(s)	inside rSNPs	diseases
10	esv1835166	chr2:35092513-35105762	Enhancers Weak transcription Flanking Active TSS Active TSS	TF binding region Chromatin interactive region	1 gene(s)	inside rSNPs	n/a
11	nsv581386	chr2:35093293-35127305	Enhancers Active TSS Weak transcription Flanking Active TSS	TF binding region Chromatin interactive region	1 gene(s)	inside rSNPs	n/a
12	nsv1012681	chr2:35097212-35186606	Enhancers Weak transcription Flanking Active TSS Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

Chromatin state (count:9 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:35095600-35100200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
2	chr2:35098800-35099800	Enhancers	Brain Substantia Nigra	brain
3	chr2:35098800-35100200	Enhancers	Brain Angular Gyrus	brain
4	chr2:35098800-35100200	Enhancers	Brain Inferior Temporal Lobe	brain
5	chr2:35099000-35100200	Enhancers	Brain Hippocampus Middle	brain
6	chr2:35099200-35100200	Enhancers	Brain Germinal Matrix	brain
7	chr2:35099400-35100800	Enhancers	Breast Myoepithelial Primary Cells	Breast
8	chr2:35099600-35100000	Enhancers	Stomach Mucosa	stomach
9	chr2:35099600-35100800	Enhancers	Brain Cingulate Gyrus	brain

Quick Search:

Input of quick search could be:

dbSNP/dbVar ID: rs12345 /nsv7879
a single nucleotide as 0-based coordinates: chr1:12345
chromosomal regions: chr1:12345-34567

what's new

Quick links