Variant report

Variant	rs12176102
Chromosome Location	chr6:57165948-57165949
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 18 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:14)

rs_ID	r²[population]
rs1013893	0.83[CHB][hapmap]
rs1119375	0.81[LWK][hapmap]
rs12664535	1.00[CEU][hapmap];0.87[CHB][hapmap];0.90[YRI][hapmap];0.83[AFR][1000 genomes];0.85[EUR][1000 genomes]
rs1618210	0.82[CHB][hapmap]
rs2098172	0.92[CEU][hapmap];0.86[CHB][hapmap]
rs3800015	0.89[CEU][hapmap];0.83[CHB][hapmap];0.90[YRI][hapmap]
rs4715656	0.89[CEU][hapmap];0.86[CHB][hapmap];0.88[YRI][hapmap]
rs7750546	0.80[EUR][1000 genomes]
rs9357943	0.82[CHB][hapmap]
rs9357944	0.89[CEU][hapmap];0.83[CHB][hapmap];0.82[CHD][hapmap];0.87[LWK][hapmap];0.92[MEX][hapmap]
rs9370573	0.99[ASN][1000 genomes]
rs9396278	0.89[CEU][hapmap];0.83[CHB][hapmap];0.81[CHD][hapmap];0.92[MEX][hapmap]
rs9475831	0.92[ASN][1000 genomes]
rs980327	0.84[CEU][hapmap];0.83[CHB][hapmap]

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	nsv491933	chr6:56177722-57171010	Active TSS Enhancers Strong transcription Weak transcription Genic enhancers Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	51 gene(s)	inside rSNPs	diseases
2	nsv934026	chr6:56382056-57184218	Flanking Bivalent TSS/Enh Strong transcription Weak transcription Enhancers Transcr. at gene 5' and 3' Flanking Active TSS Genic enhancers Bivalent/Poised TSS Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	49 gene(s)	inside rSNPs	diseases
3	nsv533050	chr6:56504480-57297586	Active TSS Enhancers Weak transcription Strong transcription Genic enhancers Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	44 gene(s)	inside rSNPs	diseases
4	nsv522084	chr6:57160035-57165948	Weak transcription Enhancers	Chromatin interactive region	n/a	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs12176102	BEND6	cis	cerebellum	SCAN

Chromatin state (count:11 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:57160800-57166400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
2	chr6:57163800-57166200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
3	chr6:57163800-57166400	Weak transcription	Stomach Smooth Muscle	stomach
4	chr6:57163800-57168800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
5	chr6:57164000-57167400	Weak transcription	Fetal Kidney	kidney
6	chr6:57164200-57171600	Enhancers	Rectal Smooth Muscle	rectum
7	chr6:57164400-57167200	Weak transcription	Muscle Satellite Cultured Cells	--
8	chr6:57165200-57166200	Weak transcription	Fetal Stomach	stomach
9	chr6:57165200-57166400	Weak transcription	Colon Smooth Muscle	Colon
10	chr6:57165400-57166400	Weak transcription	Fetal Lung	lung
11	chr6:57165400-57169400	Weak transcription	Fetal Muscle Leg	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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