Variant report

Variant	rs28902178
Chromosome Location	chr2:234874082-234874083
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 20 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:18)

rs_ID	r²[population]
rs11563217	1.00[AMR][1000 genomes]
rs11890045	1.00[AMR][1000 genomes]
rs1392605	1.00[AMR][1000 genomes]
rs1500478	1.00[AMR][1000 genomes]
rs28900709	1.00[AMR][1000 genomes]
rs28900717	1.00[AMR][1000 genomes]
rs28901624	1.00[AMR][1000 genomes]
rs28901648	1.00[AMR][1000 genomes]
rs28902171	1.00[AMR][1000 genomes]
rs28902477	1.00[AMR][1000 genomes]
rs28946906	1.00[AMR][1000 genomes]
rs61415915	1.00[AMR][1000 genomes]
rs61650568	1.00[AMR][1000 genomes]
rs73110898	1.00[AMR][1000 genomes]
rs73112612	1.00[AMR][1000 genomes]
rs73112625	1.00[AMR][1000 genomes]
rs73112628	1.00[AMR][1000 genomes]
rs73124593	1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1013712	chr2:234558457-235495825	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Strong transcription Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	41 gene(s)	inside rSNPs	diseases
2	nsv532476	chr2:234595695-235134381	Enhancers Active TSS Weak transcription Flanking Active TSS Bivalent Enhancer Strong transcription ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	37 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:17 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:234849400-234883400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
2	chr2:234862600-234882200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
3	chr2:234863000-234882200	Weak transcription	Cortex derived primary cultured neurospheres	brain
4	chr2:234873400-234874200	Enhancers	NHDF-Ad	bronchial
5	chr2:234873400-234874200	Enhancers	Osteobl	bone
6	chr2:234873400-234874400	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
7	chr2:234873400-234875000	Enhancers	HSMMtube	muscle
8	chr2:234873400-234875400	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
9	chr2:234873600-234874200	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
10	chr2:234873600-234875800	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
11	chr2:234873800-234874200	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
12	chr2:234873800-234874200	Enhancers	HSMM	muscle
13	chr2:234873800-234874400	Enhancers	Liver	Liver
14	chr2:234874000-234874600	Enhancers	HepG2	liver
15	chr2:234874000-234874800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
16	chr2:234874000-234876000	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
17	chr2:234874000-234879400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived

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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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