Variant report

Variant	rs778400
Chromosome Location	chr1:56701167-56701168
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 47 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:47)

rs_ID	r²[population]
rs11206759	0.81[ASN][1000 genomes]
rs11206760	0.83[ASN][1000 genomes]
rs11206762	0.85[ASN][1000 genomes]
rs1149646	0.86[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs1149648	0.87[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs1149651	0.95[AFR][1000 genomes];0.89[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs12126843	0.81[ASN][1000 genomes]
rs1230036	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1234587	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12564025	0.82[AFR][1000 genomes];0.97[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs1417770	0.96[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs2246574	0.88[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2487318	0.88[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2792773	0.88[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4927308	0.88[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs706356	0.98[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs706358	0.98[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs706376	0.82[JPT][hapmap]
rs706389	0.87[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs706392	0.87[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs706396	0.87[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs778388	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs778390	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs778391	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs778392	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs778393	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs778394	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs778396	0.91[AFR][1000 genomes];0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs778399	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs778401	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs778402	0.99[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs778403	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs778404	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs778405	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs778406	0.83[ASN][1000 genomes]
rs778407	0.96[ASN][1000 genomes]
rs778409	1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs778411	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs778412	0.96[ASN][1000 genomes]
rs778413	0.93[ASN][1000 genomes]
rs778415	0.86[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs778419	0.87[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs778421	0.87[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs778423	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs778427	0.87[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs801273	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs813574	0.85[AMR][1000 genomes];0.85[EUR][1000 genomes]

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs778400	CDCP2	cis	parietal	SCAN
rs778400	C8B	cis	parietal	SCAN
rs778400	DMRTB1	cis	cerebellum	SCAN

Chromatin state (count:3 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:56695200-56721200	Weak transcription	Psoas Muscle	Psoas
2	chr1:56696600-56701800	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
3	chr1:56700600-56701200	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived

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