Variant report

Variant	rs55833673
Chromosome Location	chr17:34216624-34216625
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-CCL5-2	chr17:34215989-34217013	NONHSAT053132
2	lnc-TAF15-5	chr17:34216562-34216808	NONHSAT053133

Extended variants
information (count: 39 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:39)

rs_ID	r²[population]
rs2072667	0.83[AMR][1000 genomes]
rs2242596	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2242597	1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2280783	0.83[ASN][1000 genomes]
rs2280786	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2280788	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2293789	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2526331	0.89[EUR][1000 genomes]
rs2702958	0.89[EUR][1000 genomes]
rs2735499	0.89[EUR][1000 genomes]
rs28914802	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs28914816	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28914817	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28914819	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3826454	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4251700	1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs4251739	1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs55680144	0.89[EUR][1000 genomes]
rs55781042	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55792948	0.89[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs55799023	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55846484	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55906604	1.00[AFR][1000 genomes];0.89[EUR][1000 genomes]
rs55915639	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs55951822	1.00[AFR][1000 genomes];0.89[EUR][1000 genomes]
rs56029903	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs56077005	1.00[AFR][1000 genomes];0.89[EUR][1000 genomes]
rs56111312	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56135703	1.00[AFR][1000 genomes]
rs56170514	1.00[AFR][1000 genomes];0.89[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs56181735	1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs56221144	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56262662	1.00[AFR][1000 genomes];0.89[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs56305516	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs56347933	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs56382694	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs61737011	0.83[AMR][1000 genomes]
rs62078115	0.83[AMR][1000 genomes]
rs72483217	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs55833673	GAS2L2	cis	Heart Left Ventricle	GTEx
rs55833673	GAS2L2	cis	Adipose Subcutaneous	GTEx
rs55833673	GAS2L2	cis	Muscle Skeletal	GTEx

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr17:34192200-34218000	Weak transcription	Stomach Smooth Muscle	stomach
2	chr17:34207400-34219200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
3	chr17:34214200-34223000	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
4	chr17:34214800-34221800	Enhancers	Primary T cells fromperipheralblood	blood
5	chr17:34215200-34220000	Enhancers	Primary T helper cells fromperipheralblood	blood
6	chr17:34215200-34220200	Enhancers	Primary T helper naive cells from peripheral blood	blood
7	chr17:34215200-34220200	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
8	chr17:34215200-34221000	Enhancers	Primary T killer memory cells from peripheral blood	blood
9	chr17:34215400-34220400	Enhancers	Primary T killer naive cells fromperipheralblood	blood
10	chr17:34215400-34220600	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
11	chr17:34215600-34218200	Enhancers	Thymus	Thymus
12	chr17:34215800-34216800	Strong transcription	Placenta	Placenta
13	chr17:34216000-34217000	Weak transcription	Primary T helper cells PMA-I stimulated	--
14	chr17:34216000-34220000	Enhancers	Fetal Thymus	thymus
15	chr17:34216200-34218800	Enhancers	Placenta Amnion	Placenta Amnion
16	chr17:34216400-34216800	Weak transcription	Small Intestine	intestine
17	chr17:34216400-34218200	Enhancers	Brain Germinal Matrix	brain
18	chr17:34216400-34219000	Enhancers	GM12878-XiMat	blood
19	chr17:34216600-34217600	Enhancers	Cortex derived primary cultured neurospheres	brain

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