Variant report

Variant	rs2916577
Chromosome Location	chr5:107316863-107316864
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 27 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:26)

rs_ID	r²[population]
rs10477882	0.92[AMR][1000 genomes];0.87[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs176385	0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs188275	0.96[AMR][1000 genomes];0.92[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2116823	0.83[CEU][hapmap];0.87[CHD][hapmap];0.95[MEX][hapmap]
rs2416521	0.92[AMR][1000 genomes];0.86[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs288180	0.82[TSI][hapmap]
rs288183	0.96[TSI][hapmap]
rs288187	0.89[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs288188	0.89[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs288190	0.91[CEU][hapmap];1.00[CHB][hapmap];0.87[CHD][hapmap];0.90[GIH][hapmap];1.00[JPT][hapmap];0.86[MEX][hapmap];1.00[TSI][hapmap];0.94[AMR][1000 genomes];0.90[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs288191	0.92[AMR][1000 genomes];0.89[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs288193	0.91[CEU][hapmap];1.00[CHB][hapmap];0.89[CHD][hapmap];0.92[GIH][hapmap];1.00[JPT][hapmap];0.95[MEX][hapmap];1.00[TSI][hapmap];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs3925679	0.83[CEU][hapmap]
rs6596762	0.90[CHB][hapmap]
rs6867577	0.86[CHB][hapmap];0.87[CHD][hapmap];0.89[JPT][hapmap]
rs6882731	0.84[CHD][hapmap];0.81[MEX][hapmap]
rs6886275	0.83[CEU][hapmap]
rs6886766	0.84[CHD][hapmap];0.81[MEX][hapmap]
rs6896080	0.90[CHB][hapmap]
rs7444532	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.96[AMR][1000 genomes];0.88[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7707026	0.90[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs7721143	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs8180405	1.00[CEU][hapmap];0.95[CHB][hapmap];0.87[CHD][hapmap];0.87[GIH][hapmap];1.00[JPT][hapmap];0.95[MEX][hapmap];1.00[TSI][hapmap];0.92[AMR][1000 genomes];0.88[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs867912	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];0.87[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9328026	0.90[CHB][hapmap]
rs967489	0.90[CHB][hapmap]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv882682	chr5:107213361-107458336	Enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats Bivalent Enhancer Genic enhancers	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs2916577	FER	cis	cerebellum	SCAN

Chromatin state (count:19 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:107296200-107321000	Weak transcription	Primary T cells from cord blood	blood
2	chr5:107302400-107334600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
3	chr5:107309000-107318800	Weak transcription	Left Ventricle	heart
4	chr5:107312800-107317400	Weak transcription	HUES48 Cell Line	embryonic stem cell
5	chr5:107313400-107317400	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
6	chr5:107313800-107318600	Weak transcription	Stomach Mucosa	stomach
7	chr5:107313800-107321000	Weak transcription	Lung	lung
8	chr5:107314400-107320400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
9	chr5:107314600-107320800	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
10	chr5:107315200-107317000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
11	chr5:107315200-107317400	Enhancers	Primary T cells fromperipheralblood	blood
12	chr5:107315400-107317000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
13	chr5:107316000-107327000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
14	chr5:107316200-107318400	Weak transcription	Cortex derived primary cultured neurospheres	brain
15	chr5:107316200-107320000	Weak transcription	Dnd41	blood
16	chr5:107316400-107317200	Enhancers	NHLF	lung
17	chr5:107316800-107317000	Enhancers	Pancreatic Islets	Pancreatic Islet
18	chr5:107316800-107317200	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
19	chr5:107316800-107317200	Enhancers	Primary T killer naive cells fromperipheralblood	blood

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