Variant report

Variant	rs11728647
Chromosome Location	chr4:47186217-47186218
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 40 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:34)

rs_ID	r²[population]
rs10002370	0.91[GIH][hapmap];0.84[MEX][hapmap]
rs10015561	0.81[CHB][hapmap];0.84[CHD][hapmap];0.87[JPT][hapmap];0.81[LWK][hapmap];0.86[YRI][hapmap]
rs10021932	1.00[CEU][hapmap];0.82[CHB][hapmap];0.96[YRI][hapmap];0.94[AFR][1000 genomes];0.96[AMR][1000 genomes];0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10025913	0.91[GIH][hapmap]
rs10030659	1.00[CEU][hapmap];0.86[CHB][hapmap];0.87[JPT][hapmap];0.96[YRI][hapmap]
rs1023775	1.00[CEU][hapmap];0.86[CHB][hapmap];1.00[MEX][hapmap];0.81[MKK][hapmap];0.88[TSI][hapmap];0.82[YRI][hapmap];0.96[AMR][1000 genomes];0.91[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1023776	1.00[CEU][hapmap];0.86[CHB][hapmap];0.82[YRI][hapmap];0.96[AMR][1000 genomes];0.92[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs10938477	0.91[GIH][hapmap]
rs11727585	0.86[CHB][hapmap];0.87[JPT][hapmap];1.00[YRI][hapmap];0.87[AFR][1000 genomes];0.85[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs11936304	0.83[CHB][hapmap]
rs12501039	0.87[AFR][1000 genomes];0.83[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs12502432	0.91[GIH][hapmap]
rs13125961	0.82[CHB][hapmap];0.87[JPT][hapmap];1.00[YRI][hapmap];0.89[AFR][1000 genomes];0.85[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs13131816	1.00[ASW][hapmap];1.00[CEU][hapmap];0.91[CHB][hapmap];0.85[CHD][hapmap];0.87[JPT][hapmap];0.96[LWK][hapmap];0.93[MEX][hapmap];0.85[MKK][hapmap];0.88[TSI][hapmap];0.96[YRI][hapmap];0.94[AFR][1000 genomes];0.96[AMR][1000 genomes];0.92[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1372486	1.00[CEU][hapmap];0.86[CHB][hapmap];0.87[JPT][hapmap];0.96[YRI][hapmap];0.94[AFR][1000 genomes];0.92[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs1442094	0.91[GIH][hapmap];0.82[MEX][hapmap]
rs1442097	0.81[ASW][hapmap];0.86[CHB][hapmap];0.84[CHD][hapmap];0.87[JPT][hapmap];0.91[LWK][hapmap];1.00[YRI][hapmap];0.87[AFR][1000 genomes];0.85[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs1442105	0.93[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs1442107	0.82[CHB][hapmap]
rs1561776	0.91[GIH][hapmap]
rs1596139	0.91[GIH][hapmap];0.84[MEX][hapmap]
rs1963910	0.96[AMR][1000 genomes];0.92[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2028524	0.82[CHB][hapmap]
rs2044084	0.91[GIH][hapmap];0.84[MEX][hapmap]
rs2119779	1.00[CEU][hapmap];0.86[CHB][hapmap];0.85[CHD][hapmap];0.87[JPT][hapmap];0.85[MEX][hapmap];0.88[TSI][hapmap];0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2165611	0.93[CEU][hapmap];0.86[CHB][hapmap];0.86[JPT][hapmap];1.00[YRI][hapmap]
rs4695197	1.00[CEU][hapmap];0.86[CHB][hapmap];0.82[YRI][hapmap]
rs6447539	0.96[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6819531	0.81[CHB][hapmap]
rs6839184	0.91[GIH][hapmap]
rs7660544	0.85[AFR][1000 genomes];0.93[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs971353	0.82[CHB][hapmap]
rs971354	0.82[CHB][hapmap]
rs993777	1.00[CEU][hapmap];0.86[CHB][hapmap];0.92[YRI][hapmap]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv829922	chr4:47093785-47261181	Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
2	nsv879003	chr4:47102993-47215939	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
3	nsv4325	chr4:47142343-47187026	Enhancers Weak transcription Flanking Active TSS Active TSS	lncRNA	n/a	inside rSNPs	diseases
4	nsv1009766	chr4:47155845-47277391	Enhancers Flanking Active TSS Weak transcription Active TSS	lncRNA	n/a	inside rSNPs	diseases
5	nsv1013512	chr4:47178547-47213133	Enhancers Weak transcription Active TSS Flanking Active TSS	n/a	n/a	inside rSNPs	diseases
6	nsv537079	chr4:47178547-47213133	Weak transcription Enhancers Active TSS Flanking Active TSS	n/a	n/a	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs11728647	HEY2	trans	cerebellum	SCAN

Chromatin state (count:5 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:47185800-47186800	Enhancers	Duodenum Mucosa	Duodenum
2	chr4:47185800-47187000	Enhancers	Fetal Intestine Small	intestine
3	chr4:47185800-47187200	Enhancers	Rectal Mucosa Donor 31	rectum
4	chr4:47185800-47187400	Enhancers	Fetal Intestine Large	intestine
5	chr4:47186000-47190200	Active TSS	Rectal Mucosa Donor 29	rectum

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