Variant report

Variant	rs3017479
Chromosome Location	chr11:70701130-70701131
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 7 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:7)

rs_ID	r²[population]
rs10751308	0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11237722	0.87[CEU][hapmap];1.00[CHB][hapmap];0.93[CHD][hapmap];1.00[JPT][hapmap];0.81[MEX][hapmap];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12806832	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.93[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];0.97[TSI][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2921326	0.86[CEU][hapmap];0.83[EUR][1000 genomes]
rs2921331	0.81[JPT][hapmap]
rs3019837	0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6592814	0.82[EUR][1000 genomes];0.96[ASN][1000 genomes]

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs3017479	LRP5	cis	parietal	SCAN
rs3017479	TMEM134	cis	parietal	SCAN
rs3017479	SHANK2	cis	parietal	SCAN

Chromatin state (count:16 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:70670000-70731800	Weak transcription	Gastric	stomach
2	chr11:70681800-70701400	Weak transcription	Liver	Liver
3	chr11:70696800-70706000	Weak transcription	HepG2	liver
4	chr11:70698600-70709000	Weak transcription	Fetal Intestine Small	intestine
5	chr11:70699400-70703400	Weak transcription	Skeletal Muscle Female	skeletal muscle
6	chr11:70699800-70701400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
7	chr11:70699800-70709800	Weak transcription	Fetal Brain Male	brain
8	chr11:70700000-70701600	Weak transcription	Psoas Muscle	Psoas
9	chr11:70700000-70708000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
10	chr11:70700200-70701400	Enhancers	Fetal Muscle Trunk	muscle
11	chr11:70700600-70701200	Enhancers	Fetal Stomach	stomach
12	chr11:70700800-70701200	Weak transcription	Pancreas	Pancrea
13	chr11:70700800-70701400	Enhancers	Cortex derived primary cultured neurospheres	brain
14	chr11:70700800-70702200	Enhancers	Fetal Kidney	kidney
15	chr11:70701000-70707200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
16	chr11:70701000-70712200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell

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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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