Variant report

Variant	rs9385647
Chromosome Location	chr6:133748381-133748382
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 23 )
Associated
traits (count: 4 )

rSNPs within LD-proxies of this variant (count:18)

rs_ID	r²[population]
rs1012605	0.84[AFR][1000 genomes];0.83[EUR][1000 genomes]
rs1336534	0.81[CEU][hapmap];0.85[TSI][hapmap];0.80[EUR][1000 genomes]
rs1889946	0.80[EUR][1000 genomes]
rs1889947	0.80[EUR][1000 genomes]
rs1926090	0.81[CEU][hapmap];0.86[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1932748	0.91[EUR][1000 genomes]
rs211591	0.82[CEU][hapmap]
rs211592	0.82[CEU][hapmap]
rs211593	0.82[CEU][hapmap]
rs211595	0.82[CEU][hapmap]
rs211623	0.82[CEU][hapmap]
rs211626	0.82[CEU][hapmap]
rs212786	0.82[CEU][hapmap]
rs212787	0.82[CEU][hapmap]
rs212790	0.82[CEU][hapmap]
rs6899927	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6907872	0.83[CEU][hapmap]
rs760861	0.80[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1025700	chr6:133726264-133748758	Weak transcription Enhancers Flanking Active TSS Active TSS Bivalent Enhancer	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
2	nsv1019755	chr6:133726502-133748758	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
3	nsv1020698	chr6:133726502-133751161	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
4	nsv525971	chr6:133726646-133753825	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS ZNF genes & repeats	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
5	esv3473392	chr6:133743959-133749357	Enhancers Bivalent Enhancer Weak transcription	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

mRNA abundance (count:4)

SNP	Gene	Cis/trans	Tissue	Source
rs9385647	VNN3	cis	cerebellum	SCAN
rs9385647	MAP3K5	cis	parietal	SCAN
rs9385647	SNORD101	cis	cerebellum	SCAN
rs9385647	TAAR2	cis	cerebellum	SCAN

Chromatin state (count:10 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:133720200-133748400	Weak transcription	Hela-S3	cervix
2	chr6:133720400-133749600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
3	chr6:133726600-133752200	Weak transcription	Right Atrium	heart
4	chr6:133732600-133758200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
5	chr6:133736400-133752200	Weak transcription	Fetal Muscle Leg	muscle
6	chr6:133744400-133752400	Weak transcription	Cortex derived primary cultured neurospheres	brain
7	chr6:133746000-133753200	Weak transcription	Fetal Muscle Trunk	muscle
8	chr6:133748000-133752000	Weak transcription	Psoas Muscle	Psoas
9	chr6:133748000-133752000	Weak transcription	Skeletal Muscle Female	skeletal muscle
10	chr6:133748200-133752200	Weak transcription	Skeletal Muscle Male	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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