Variant report

Variant	rs2889909
Chromosome Location	chr1:221403841-221403842
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 15 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:12)

rs_ID	r²[population]
rs11118670	0.93[ASN][1000 genomes]
rs12043442	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1442461	0.93[ASN][1000 genomes]
rs1473302	0.94[ASN][1000 genomes]
rs1891169	0.87[ASN][1000 genomes]
rs2378454	0.90[ASN][1000 genomes]
rs6664199	0.93[ASN][1000 genomes]
rs7413724	0.92[ASN][1000 genomes]
rs751250	0.93[ASN][1000 genomes]
rs9431086	0.94[ASN][1000 genomes]
rs9431087	0.94[ASN][1000 genomes]
rs9431466	0.91[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv997685	chr1:220993527-221863416	Enhancers Weak transcription Bivalent/Poised TSS Active TSS Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	28 gene(s)	inside rSNPs	diseases
2	nsv535299	chr1:220993527-221863416	Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Weak transcription Bivalent Enhancer Bivalent/Poised TSS Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	28 gene(s)	inside rSNPs	diseases
3	nsv873199	chr1:221136672-221451217	Enhancers Flanking Active TSS Weak transcription Bivalent Enhancer Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:221401400-221404400	Enhancers	Rectal Smooth Muscle	rectum
2	chr1:221402400-221410600	Weak transcription	Psoas Muscle	Psoas
3	chr1:221402600-221404000	Weak transcription	Fetal Muscle Leg	muscle
4	chr1:221402600-221405200	Weak transcription	Duodenum Smooth Muscle	Duodenum
5	chr1:221402600-221408400	Weak transcription	Colon Smooth Muscle	Colon
6	chr1:221402600-221409200	Weak transcription	Fetal Lung	lung
7	chr1:221403600-221404400	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
8	chr1:221403600-221404400	Enhancers	Fetal Heart	heart
9	chr1:221403600-221404400	Enhancers	Stomach Smooth Muscle	stomach
10	chr1:221403600-221404600	Enhancers	Skeletal Muscle Female	skeletal muscle
11	chr1:221403600-221404800	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
12	chr1:221403800-221404200	Enhancers	HSMMtube	muscle
13	chr1:221403800-221404400	Enhancers	Fetal Kidney	kidney
14	chr1:221403800-221404600	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
15	chr1:221403800-221405000	Enhancers	Skeletal Muscle Male	skeletal muscle

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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

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