Variant report

Variant	rs159423
Chromosome Location	chr6:133718501-133718502
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 12 )
Associated
traits (count: 1 )

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

rs_ID	r²[population]
rs120490	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs159409	0.82[ASN][1000 genomes]
rs159414	0.88[ASN][1000 genomes]
rs159417	1.00[CEU][hapmap];0.85[GIH][hapmap];0.81[MKK][hapmap];1.00[TSI][hapmap];0.84[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs159418	0.96[CEU][hapmap];0.97[TSI][hapmap];0.92[EUR][1000 genomes]
rs159424	0.91[EUR][1000 genomes]
rs212808	0.95[CEU][hapmap];0.86[CHB][hapmap];0.83[JPT][hapmap];0.83[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs296422	1.00[ASW][hapmap];0.96[CEU][hapmap];1.00[CHB][hapmap];0.98[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.81[LWK][hapmap];1.00[MEX][hapmap];0.94[MKK][hapmap];0.97[TSI][hapmap];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs296426	0.96[CEU][hapmap];1.00[CHB][hapmap];0.98[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.97[TSI][hapmap];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs296428	0.83[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs296429	0.96[CEU][hapmap];0.83[JPT][hapmap];0.84[MEX][hapmap];0.97[TSI][hapmap];0.83[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs296430	0.91[CEU][hapmap];0.97[EUR][1000 genomes]

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs159423	VNN3	cis	cerebellum	SCAN

Chromatin state (count:13 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:133709800-133719800	Enhancers	Cortex derived primary cultured neurospheres	brain
2	chr6:133713800-133719200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
3	chr6:133715000-133719400	Weak transcription	Hela-S3	cervix
4	chr6:133716000-133728600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
5	chr6:133716800-133718600	Enhancers	Skeletal Muscle Male	skeletal muscle
6	chr6:133717000-133718600	Enhancers	HSMMtube	muscle
7	chr6:133717600-133718600	Enhancers	Fetal Muscle Leg	muscle
8	chr6:133718000-133720600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
9	chr6:133718000-133725000	Weak transcription	A549	lung
10	chr6:133718200-133728600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
11	chr6:133718400-133718600	Enhancers	Psoas Muscle	Psoas
12	chr6:133718400-133719800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
13	chr6:133718400-133725800	Weak transcription	Skeletal Muscle Female	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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