Variant report

Variant	rs159417
Chromosome Location	chr6:133714231-133714232
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 10 )
Associated
traits (count: 1 )

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

rs_ID	r²[population]
rs120490	1.00[CEU][hapmap];0.84[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs159418	1.00[ASW][hapmap];0.96[CEU][hapmap];0.88[MKK][hapmap];0.97[TSI][hapmap];0.92[EUR][1000 genomes]
rs159423	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]
rs159424	0.91[EUR][1000 genomes]
rs212808	0.95[CEU][hapmap];0.82[JPT][hapmap];0.89[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs296422	0.96[CEU][hapmap];0.85[GIH][hapmap];0.97[TSI][hapmap];0.84[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs296426	0.96[CEU][hapmap];0.85[GIH][hapmap];0.97[TSI][hapmap];0.84[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs296428	0.84[AMR][1000 genomes];0.97[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs296429	0.96[CEU][hapmap];0.87[CHB][hapmap];0.82[JPT][hapmap];0.83[MEX][hapmap];0.97[TSI][hapmap];0.84[AMR][1000 genomes];0.97[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs296430	0.91[CEU][hapmap];0.97[EUR][1000 genomes];0.82[ASN][1000 genomes]

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs159417	VNN3	cis	cerebellum	SCAN

Chromatin state (count:19 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:133684600-133717800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
2	chr6:133707600-133714400	Weak transcription	Hela-S3	cervix
3	chr6:133709800-133719800	Enhancers	Cortex derived primary cultured neurospheres	brain
4	chr6:133710600-133716400	Weak transcription	Psoas Muscle	Psoas
5	chr6:133711200-133717400	Weak transcription	Skeletal Muscle Female	skeletal muscle
6	chr6:133712200-133716200	Weak transcription	Skeletal Muscle Male	skeletal muscle
7	chr6:133712400-133716000	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
8	chr6:133712600-133714400	Enhancers	H9 Cell Line	embryonic stem cell
9	chr6:133712600-133714400	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
10	chr6:133712600-133714400	Enhancers	HUES64 Cell Line	embryonic stem cell
11	chr6:133713000-133715200	Enhancers	Brain Hippocampus Middle	brain
12	chr6:133713000-133715800	Weak transcription	Fetal Heart	heart
13	chr6:133713200-133715200	Weak transcription	Brain Substantia Nigra	brain
14	chr6:133713200-133716000	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
15	chr6:133713600-133717800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
16	chr6:133713800-133716600	Weak transcription	Fetal Muscle Leg	muscle
17	chr6:133713800-133719200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
18	chr6:133714000-133714400	Enhancers	HSMM	muscle
19	chr6:133714200-133717000	Weak transcription	HSMMtube	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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