Variant report

Variant	rs6769249
Chromosome Location	chr3:17002619-17002620
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 22 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:21)

rs_ID	r²[population]
rs17042926	1.00[CEU][hapmap];1.00[CHB][hapmap];0.89[CHD][hapmap];0.95[GIH][hapmap];1.00[JPT][hapmap];0.97[TSI][hapmap];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs17272754	1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs28498854	0.93[ASN][1000 genomes]
rs34053933	0.98[ASN][1000 genomes]
rs34126040	0.98[ASN][1000 genomes]
rs35941157	0.83[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs4130495	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs58855245	0.98[ASN][1000 genomes]
rs59256854	0.98[ASN][1000 genomes]
rs6442659	1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs6775782	1.00[CEU][hapmap];0.88[CHB][hapmap];1.00[JPT][hapmap];0.92[YRI][hapmap];0.89[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6778233	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.80[MEX][hapmap];1.00[ASN][1000 genomes]
rs6796868	0.84[CEU][hapmap];0.89[CHD][hapmap];0.87[TSI][hapmap];0.87[EUR][1000 genomes]
rs6805550	1.00[ASN][1000 genomes]
rs7645276	1.00[ASN][1000 genomes]
rs9835432	1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs9845551	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs9858664	0.86[EUR][1000 genomes]
rs9870977	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs9876768	1.00[CHB][hapmap];0.89[CHD][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs9881997	1.00[ASN][1000 genomes]

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	nsv980048	chr3:16995372-17016178	Weak transcription Enhancers ZNF genes & repeats Strong transcription	Chromatin interactive region	n/a	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs6769249	PLCL2	cis	Whole Blood	GTEx

Chromatin state (count:26 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:16984200-17003400	Weak transcription	Spleen	Spleen
2	chr3:16985000-17003400	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
3	chr3:16986800-17003000	Weak transcription	Ovary	ovary
4	chr3:16987400-17005000	Weak transcription	Primary B cells from cord blood	blood
5	chr3:16987400-17015600	Weak transcription	Aorta	Aorta
6	chr3:16993400-17003400	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
7	chr3:16993400-17005200	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
8	chr3:16999400-17003000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
9	chr3:17000000-17002800	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
10	chr3:17000600-17003000	Weak transcription	Pancreas	Pancrea
11	chr3:17000600-17003000	Weak transcription	Psoas Muscle	Psoas
12	chr3:17000600-17003000	Weak transcription	Right Atrium	heart
13	chr3:17000600-17008400	Weak transcription	Primary hematopoietic stem cells	blood
14	chr3:17000800-17002800	Weak transcription	Right Ventricle	heart
15	chr3:17000800-17003000	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
16	chr3:17001200-17002800	Weak transcription	Primary T helper naive cells from peripheral blood	blood
17	chr3:17001400-17008400	Weak transcription	Primary T cells from cord blood	blood
18	chr3:17001600-17003600	Enhancers	Fetal Heart	heart
19	chr3:17001800-17003800	Enhancers	iPS-15b Cell Line	embryonic stem cell
20	chr3:17002000-17003000	Weak transcription	Left Ventricle	heart
21	chr3:17002200-17003200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
22	chr3:17002200-17003600	Enhancers	Primary T helper cells PMA-I stimulated	--
23	chr3:17002600-17003200	Enhancers	ES-I3 Cell Line	embryonic stem cell
24	chr3:17002600-17003600	Enhancers	H1 Cell Line	embryonic stem cell
25	chr3:17002600-17003800	Enhancers	HUES48 Cell Line	embryonic stem cell
26	chr3:17002600-17004000	Enhancers	H9 Cell Line	embryonic stem cell

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