Variant report

Variant	rs17727261
Chromosome Location	chr2:125281910-125281911
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 14 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:10)

rs_ID	r²[population]
rs2420858	1.00[CEU][hapmap];0.82[MEX][hapmap]
rs2420864	1.00[CEU][hapmap];0.82[MEX][hapmap]
rs55788372	0.89[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs57475073	0.89[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs59080079	0.89[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs61486571	0.89[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs73952978	0.89[AMR][1000 genomes]
rs73953001	0.89[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs73953002	0.89[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs73956306	0.89[AMR][1000 genomes];0.83[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	nsv1014610	chr2:125124983-125350342	Enhancers Bivalent Enhancer Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	diseases
2	nsv834355	chr2:125128585-125291043	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	diseases
3	nsv834356	chr2:125141494-125315418	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer	Chromatin interactive region	n/a	inside rSNPs	diseases
4	nsv834357	chr2:125258157-125421507	Bivalent Enhancer Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	diseases

Variant related diseases (count:1)

Disease	PMID	Source
Response to antipsychotic treatment	19721433	GWAS catalog

Chromatin state (count:16 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:125279200-125284200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
2	chr2:125279600-125282600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
3	chr2:125280000-125290600	Weak transcription	H9 Cell Line	embryonic stem cell
4	chr2:125280600-125282200	Enhancers	Brain Hippocampus Middle	brain
5	chr2:125280800-125282600	Enhancers	Brain Cingulate Gyrus	brain
6	chr2:125281000-125284200	Enhancers	Stomach Smooth Muscle	stomach
7	chr2:125281200-125282200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
8	chr2:125281800-125282600	Enhancers	HUES48 Cell Line	embryonic stem cell
9	chr2:125281800-125282600	Enhancers	Brain Angular Gyrus	brain
10	chr2:125281800-125282600	Enhancers	Brain Anterior Caudate	brain
11	chr2:125281800-125282600	Enhancers	Fetal Muscle Leg	muscle
12	chr2:125281800-125282600	Enhancers	Gastric	stomach
13	chr2:125281800-125282600	Enhancers	Lung	lung
14	chr2:125281800-125282600	Enhancers	Rectal Smooth Muscle	rectum
15	chr2:125281800-125282600	Enhancers	Right Atrium	heart
16	chr2:125281800-125284600	Enhancers	Fetal Stomach	stomach

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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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