Variant report

Variant	rs296422
Chromosome Location	chr6:133725776-133725777
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 13 )
Associated
traits (count: 1 )

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

rs_ID	r²[population]
rs120490	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1336533	1.00[YRI][hapmap]
rs159409	0.80[ASN][1000 genomes]
rs159414	0.87[ASN][1000 genomes]
rs159417	0.96[CEU][hapmap];0.85[GIH][hapmap];0.97[TSI][hapmap];0.84[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs159418	0.91[CEU][hapmap];0.94[TSI][hapmap];0.90[EUR][1000 genomes]
rs159423	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]
rs159424	0.92[EUR][1000 genomes]
rs212808	1.00[CEU][hapmap];0.86[CHB][hapmap];0.83[JPT][hapmap];1.00[YRI][hapmap];0.92[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs296426	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs296428	0.83[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs296429	1.00[CEU][hapmap];0.83[JPT][hapmap];0.84[MEX][hapmap];1.00[TSI][hapmap];0.83[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs296430	0.95[CEU][hapmap];0.96[EUR][1000 genomes]

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs296422	VNN3	cis	cerebellum	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:133716000-133728600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
2	chr6:133718200-133728600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
3	chr6:133718400-133725800	Weak transcription	Skeletal Muscle Female	skeletal muscle
4	chr6:133718600-133725800	Weak transcription	Psoas Muscle	Psoas
5	chr6:133719800-133728200	Weak transcription	Cortex derived primary cultured neurospheres	brain
6	chr6:133720200-133748400	Weak transcription	Hela-S3	cervix
7	chr6:133720400-133749600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
8	chr6:133723400-133728200	Weak transcription	HUES64 Cell Line	embryonic stem cell
9	chr6:133723400-133728600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
10	chr6:133724000-133726000	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
11	chr6:133725000-133726000	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
12	chr6:133725400-133726000	Active TSS	Skeletal Muscle Male	skeletal muscle
13	chr6:133725600-133728600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived

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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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