Variant report

Variant	rs12401476
Chromosome Location	chr1:210876192-210876193
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 17 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:13)

rs_ID	r²[population]
rs12401932	0.83[CHB][hapmap];0.82[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12402520	0.83[CHB][hapmap];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12407959	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.84[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs12410100	0.95[ASN][1000 genomes]
rs17016714	1.00[ASW][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.84[LWK][hapmap];0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17016734	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.86[LWK][hapmap];1.00[YRI][hapmap];0.80[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs17016736	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs17016740	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs17016743	1.00[ASW][hapmap];1.00[CHB][hapmap];0.87[CHD][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17016759	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4366378	1.00[EUR][1000 genomes]
rs57937741	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7516561	1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv873148	chr1:210665583-210994339	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Strong transcription Genic enhancers Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh	Chromatin interactive region lncRNA miRNA target site	3 gene(s)	inside rSNPs	diseases
2	nsv873150	chr1:210808270-210893233	Enhancers Weak transcription ZNF genes & repeats Strong transcription Active TSS Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer	Chromatin interactive region lncRNA miRNA target site	1 gene(s)	inside rSNPs	diseases
3	nsv468083	chr1:210854815-210876192	Weak transcription Enhancers Flanking Active TSS Strong transcription ZNF genes & repeats Genic enhancers Active TSS Bivalent Enhancer	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
4	nsv549123	chr1:210854815-210876192	Strong transcription Weak transcription ZNF genes & repeats Enhancers Flanking Active TSS Genic enhancers Active TSS Bivalent Enhancer	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases

No data

Chromatin state (count:18 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:210838000-210880400	Weak transcription	Gastric	stomach
2	chr1:210846400-210884600	Weak transcription	Ovary	ovary
3	chr1:210857200-210882600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
4	chr1:210858000-210880400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
5	chr1:210864400-210889800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
6	chr1:210866800-210884800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
7	chr1:210869800-210882600	Weak transcription	Brain Anterior Caudate	brain
8	chr1:210870400-210879400	Weak transcription	A549	lung
9	chr1:210871200-210932000	Weak transcription	HSMM	muscle
10	chr1:210872000-210879200	Weak transcription	Brain Hippocampus Middle	brain
11	chr1:210873800-210880600	Weak transcription	Pancreas	Pancrea
12	chr1:210874200-210878200	Weak transcription	Fetal Stomach	stomach
13	chr1:210874200-210887400	Weak transcription	HSMMtube	muscle
14	chr1:210875000-210879000	Weak transcription	Liver	Liver
15	chr1:210875200-210877200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
16	chr1:210875600-210876200	Enhancers	HUES64 Cell Line	embryonic stem cell
17	chr1:210875800-210876400	Enhancers	HUES6 Cell Line	embryonic stem cell
18	chr1:210875800-210876400	Enhancers	iPS-18 Cell Line	embryonic stem cell

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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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