Variant report

Variant	rs16846945
Chromosome Location	chr3:161987836-161987837
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 14 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:8)

rs_ID	r²[population]
rs10513582	1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1109921	0.83[AFR][1000 genomes]
rs2054887	0.80[AFR][1000 genomes]
rs2897170	0.86[AFR][1000 genomes];0.87[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6788372	0.86[AFR][1000 genomes];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs73876236	0.86[AFR][1000 genomes];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9864115	0.80[AFR][1000 genomes]
rs9883161	0.80[AFR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv460919	chr3:161799090-162094430	Weak transcription Flanking Active TSS Enhancers Strong transcription Active TSS ZNF genes & repeats Bivalent Enhancer	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
2	nsv592144	chr3:161799090-162094430	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer Strong transcription	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
3	esv2751981	chr3:161863459-162016298	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
4	nsv877721	chr3:161878713-162303276	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Active TSS Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
5	nsv877723	chr3:161915857-162003134	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
6	nsv1006802	chr3:161921063-162599175	Enhancers Transcr. at gene 5' and 3' Flanking Active TSS Active TSS Weak transcription Genic enhancers ZNF genes & repeats Strong transcription Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:12 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:161982400-161991600	Weak transcription	Dnd41	blood
2	chr3:161986800-161988000	Enhancers	Cortex derived primary cultured neurospheres	brain
3	chr3:161987000-161988000	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
4	chr3:161987000-161988200	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
5	chr3:161987000-161988200	Enhancers	Fetal Brain Male	brain
6	chr3:161987200-161988000	Enhancers	HUES64 Cell Line	embryonic stem cell
7	chr3:161987200-161988000	Enhancers	iPS-20b Cell Line	embryonic stem cell
8	chr3:161987200-161988000	Enhancers	Fetal Brain Female	brain
9	chr3:161987200-161988200	Enhancers	iPS-18 Cell Line	embryonic stem cell
10	chr3:161987400-161988000	Flanking Active TSS	Ganglion Eminence derived primary cultured neurospheres	brain
11	chr3:161987400-161988200	Enhancers	HUES48 Cell Line	embryonic stem cell
12	chr3:161987800-161988200	Enhancers	Brain Germinal Matrix	brain

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

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