Variant report

Variant	rs11549705
Chromosome Location	chr3:17132005-17132006
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:17109611..17112093-chr3:17130778..17133549,3	K562	blood:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-TBC1D5-2	chr3:17131743-17132014	NONHSAT088538

Extended variants
information (count: 12 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:12)

rs_ID	r²[population]
rs17272789	0.85[CEU][hapmap]
rs17272817	1.00[CHB][hapmap]
rs4452307	0.86[ASW][hapmap];0.82[MEX][hapmap]
rs60043409	0.94[EUR][1000 genomes]
rs6442662	0.86[ASW][hapmap]
rs6772001	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.89[GIH][hapmap];1.00[JPT][hapmap];0.82[MEX][hapmap];0.84[TSI][hapmap];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6772050	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];0.89[TSI][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6773420	0.88[EUR][1000 genomes]
rs6791174	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9822682	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9841482	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9868443	0.94[EUR][1000 genomes]

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs11549705	PLCL2	cis	multi-tissue	Pritchard

Chromatin state (count:77 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:17089400-17135000	Weak transcription	Pancreas	Pancrea
2	chr3:17103400-17134400	Strong transcription	Monocytes-CD14+_RO01746	blood
3	chr3:17107000-17133400	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
4	chr3:17110800-17132200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
5	chr3:17112200-17137400	Weak transcription	Brain Germinal Matrix	brain
6	chr3:17112600-17135800	Weak transcription	H1 Cell Line	embryonic stem cell
7	chr3:17112800-17135200	Weak transcription	Fetal Brain Male	brain
8	chr3:17120400-17133400	Weak transcription	Primary hematopoietic stem cells short term culture	blood
9	chr3:17120400-17135000	Weak transcription	HUVEC	blood vessel
10	chr3:17121000-17134400	Weak transcription	Gastric	stomach
11	chr3:17121600-17132200	Weak transcription	Fetal Stomach	stomach
12	chr3:17122800-17136000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
13	chr3:17123200-17132200	Weak transcription	Sigmoid Colon	Sigmoid Colon
14	chr3:17127200-17136000	Weak transcription	Fetal Intestine Small	intestine
15	chr3:17127600-17133800	Strong transcription	Primary B cells from cord blood	blood
16	chr3:17127800-17134200	Strong transcription	Primary B cells from peripheral blood	blood
17	chr3:17128200-17132400	Enhancers	Fetal Heart	heart
18	chr3:17128600-17133200	Weak transcription	GM12878-XiMat	blood
19	chr3:17128800-17132200	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
20	chr3:17129000-17134600	Enhancers	Psoas Muscle	Psoas
21	chr3:17129000-17141400	Weak transcription	Fetal Brain Female	brain
22	chr3:17129600-17132400	Enhancers	Brain Angular Gyrus	brain
23	chr3:17129600-17132400	Enhancers	Fetal Muscle Leg	muscle
24	chr3:17129600-17134600	Strong transcription	Primary neutrophils fromperipheralblood	blood
25	chr3:17130000-17135800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
26	chr3:17130200-17133200	Strong transcription	Placenta	Placenta
27	chr3:17130200-17134600	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
28	chr3:17130400-17132400	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
29	chr3:17130400-17133800	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
30	chr3:17130400-17134200	Strong transcription	Primary monocytes fromperipheralblood	blood
31	chr3:17130400-17143400	Weak transcription	Thymus	Thymus
32	chr3:17130600-17135400	Weak transcription	Fetal Thymus	thymus
33	chr3:17130800-17132400	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
34	chr3:17130800-17133800	Strong transcription	Primary T cells from cord blood	blood
35	chr3:17130800-17134200	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
36	chr3:17130800-17134200	Weak transcription	Dnd41	blood
37	chr3:17130800-17135000	Weak transcription	Ovary	ovary
38	chr3:17130800-17136000	Weak transcription	Fetal Muscle Trunk	muscle
39	chr3:17130800-17136000	Weak transcription	Right Ventricle	heart
40	chr3:17130800-17137000	Enhancers	Skeletal Muscle Male	skeletal muscle
41	chr3:17131000-17133000	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
42	chr3:17131000-17134200	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
43	chr3:17131200-17132400	Strong transcription	Fetal Intestine Large	intestine
44	chr3:17131200-17132400	Strong transcription	Rectal Mucosa Donor 29	rectum
45	chr3:17131200-17132400	Strong transcription	Spleen	Spleen
46	chr3:17131200-17132800	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
47	chr3:17131200-17133000	Strong transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
48	chr3:17131200-17133000	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
49	chr3:17131200-17134400	Strong transcription	Liver	Liver
50	chr3:17131200-17135400	Weak transcription	Primary T killer memory cells from peripheral blood	blood

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