Variant report

Variant	rs2738921
Chromosome Location	chr3:146255594-146255595
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:12)
CpG islands
(count:0)
Chromatin interactive
region (count:5)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

(count:12 , 50 per page) page: 1

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	CEBPB	chr3:146255525-146255699	A549	lung:	n/a	n/a
2	POLR2A	chr3:146254067-146256812	K562	blood:	n/a	n/a
3	POLR2A	chr3:146254935-146255716	Hela-S3	cervix:	n/a	n/a
4	TEAD4	chr3:146255490-146255745	H1-hESC	embryonic stem cell:	n/a	n/a
5	POLR2A	chr3:146254399-146255969	A549	lung:	n/a	n/a
6	FOS	chr3:146255580-146255725	MCF10A-Er-Src	breast:	n/a	n/a
7	JUND	chr3:146255462-146255777	HepG2	liver:	n/a	n/a
8	JUND	chr3:146255536-146255722	H1-hESC	embryonic stem cell:	n/a	n/a
9	POLR2A	chr3:146254635-146255682	Hela-S3	cervix:	n/a	n/a
10	JUN	chr3:146255516-146255761	HepG2	liver:	n/a	chr3:146255602-146255615
11	POLR2A	chr3:146254123-146256380	K562	blood:	n/a	n/a
12	JUND	chr3:146255558-146255778	K562	blood:	n/a	n/a

No data

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

No.	Distal block	Cell Line	Cell type
1	chr3:146254115..146256698-chr3:146261297..146263941,3	MCF-7	breast:
2	chr3:146245382..146249214-chr3:146253354..146257434,4	K562	blood:
3	chr3:146251866..146257697-chr3:146260468..146262994,8	MCF-7	breast:
4	chr3:146247932..146249479-chr3:146254766..146256376,2	MCF-7	breast:
5	chr3:146250212..146252828-chr3:146254951..146257363,2	K562	blood:

No data

Variant related genes	Relation type
PLSCR1	TF binding region
ENSG00000188313	Chromatin interaction

Extended variants
information (count: 62 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:57)

rs_ID	r²[population]
rs1057481	0.82[JPT][hapmap]
rs1079369	0.82[JPT][hapmap]
rs13064509	0.82[JPT][hapmap]
rs13069082	0.82[JPT][hapmap]
rs13074501	0.82[CHB][hapmap];0.87[CHD][hapmap];0.94[JPT][hapmap];0.83[MKK][hapmap];0.89[ASN][1000 genomes]
rs1373246	0.82[JPT][hapmap]
rs1443827	0.82[JPT][hapmap]
rs1546420	0.89[ASN][1000 genomes]
rs1546421	0.89[ASN][1000 genomes]
rs1579786	0.87[ASN][1000 genomes]
rs1579787	0.87[ASN][1000 genomes]
rs16858420	0.82[JPT][hapmap]
rs1882972	0.82[JPT][hapmap]
rs1882973	0.82[JPT][hapmap]
rs1882974	0.82[JPT][hapmap]
rs1997604	0.82[JPT][hapmap]
rs2083866	0.87[ASN][1000 genomes]
rs2587008	0.82[JPT][hapmap]
rs2587011	0.82[JPT][hapmap]
rs2587012	0.82[JPT][hapmap]
rs2587013	0.82[JPT][hapmap]
rs2587014	0.82[JPT][hapmap]
rs2587015	0.82[JPT][hapmap]
rs2587017	0.81[JPT][hapmap]
rs2587018	0.82[JPT][hapmap]
rs2587021	1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs2587023	0.82[JPT][hapmap]
rs2587025	0.81[CEU][hapmap]
rs2609860	0.82[JPT][hapmap]
rs2609861	0.82[JPT][hapmap]
rs2609864	0.82[JPT][hapmap]
rs2609865	0.82[JPT][hapmap]
rs2609866	0.82[JPT][hapmap]
rs2688693	0.82[JPT][hapmap]
rs2738906	0.82[JPT][hapmap]
rs2738907	0.82[JPT][hapmap]
rs2738910	0.82[JPT][hapmap]
rs2738911	0.82[JPT][hapmap]
rs2738915	0.82[JPT][hapmap]
rs2738916	0.82[JPT][hapmap]
rs2738918	0.82[JPT][hapmap]
rs2738920	0.82[JPT][hapmap]
rs2738923	0.82[JPT][hapmap]
rs34682680	0.82[ASN][1000 genomes]
rs35046242	0.89[ASN][1000 genomes]
rs35416584	0.89[ASN][1000 genomes]
rs7615988	0.82[JPT][hapmap]
rs7639636	0.81[CEU][hapmap];0.94[JPT][hapmap];0.89[ASN][1000 genomes]
rs9289722	0.81[JPT][hapmap]
rs977757	0.89[ASN][1000 genomes]
rs977759	0.89[ASN][1000 genomes]
rs9810169	0.87[ASN][1000 genomes]
rs9813199	0.89[ASW][hapmap];0.81[CEU][hapmap];0.82[CHB][hapmap];0.94[CHD][hapmap];0.86[GIH][hapmap];0.94[JPT][hapmap];0.82[LWK][hapmap];1.00[MEX][hapmap];0.88[MKK][hapmap];0.89[ASN][1000 genomes]
rs9832220	0.82[CHB][hapmap];0.94[JPT][hapmap];0.89[ASN][1000 genomes]
rs9833135	0.82[CHB][hapmap];0.94[JPT][hapmap];0.89[ASN][1000 genomes]
rs9861142	0.82[JPT][hapmap]
rs9876886	0.82[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3448053	chr3:146186791-146262066	Weak transcription Active TSS Enhancers Flanking Active TSS Strong transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	13 gene(s)	inside rSNPs	diseases
2	esv3523751	chr3:146186838-146261806	Weak transcription Enhancers Flanking Active TSS Strong transcription Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	6 gene(s)	inside rSNPs	diseases
3	esv3523753	chr3:146186838-146261806	Weak transcription ZNF genes & repeats Flanking Active TSS Enhancers Strong transcription Active TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	6 gene(s)	inside rSNPs	diseases
4	esv2496437	chr3:146186902-146262961	Enhancers Active TSS Genic enhancers Weak transcription Strong transcription Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	18 gene(s)	inside rSNPs	diseases
5	nsv1014493	chr3:146255594-146288414	Weak transcription Enhancers Active TSS Flanking Active TSS Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	19 gene(s)	inside rSNPs	n/a

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs2738921	AADACL2	cis	cerebellum	SCAN

Chromatin state (count:115 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:146225400-146256600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr3:146225400-146257000	Weak transcription	Right Ventricle	heart
3	chr3:146225400-146260800	Weak transcription	NH-A	brain
4	chr3:146225600-146258600	Weak transcription	Brain Hippocampus Middle	brain
5	chr3:146229000-146259600	Weak transcription	Skeletal Muscle Female	skeletal muscle
6	chr3:146229800-146257000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
7	chr3:146231600-146257200	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
8	chr3:146231600-146258600	Weak transcription	Primary T killer memory cells from peripheral blood	blood
9	chr3:146231600-146259000	Weak transcription	Brain Angular Gyrus	brain
10	chr3:146231600-146260800	Weak transcription	Skeletal Muscle Male	skeletal muscle
11	chr3:146232000-146257400	Weak transcription	Primary T helper cells PMA-I stimulated	--
12	chr3:146232000-146259600	Weak transcription	NHDF-Ad	bronchial
13	chr3:146232800-146256000	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
14	chr3:146233000-146259800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
15	chr3:146233000-146261400	Weak transcription	Fetal Muscle Trunk	muscle
16	chr3:146233600-146259200	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
17	chr3:146234400-146258000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
18	chr3:146240400-146257200	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
19	chr3:146241800-146258600	Weak transcription	Primary T helper naive cells from peripheral blood	blood
20	chr3:146244800-146258200	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
21	chr3:146246600-146257200	Weak transcription	Primary T helper cells fromperipheralblood	blood
22	chr3:146247200-146260800	Weak transcription	Placenta Amnion	Placenta Amnion
23	chr3:146248800-146260800	Weak transcription	HSMM	muscle
24	chr3:146249000-146259600	Weak transcription	Aorta	Aorta
25	chr3:146249400-146260800	Weak transcription	NHLF	lung
26	chr3:146250000-146257200	Weak transcription	A549	lung
27	chr3:146250600-146256600	Weak transcription	H1 Cell Line	embryonic stem cell
28	chr3:146250600-146256600	Weak transcription	H9 Cell Line	embryonic stem cell
29	chr3:146250600-146257000	Weak transcription	Primary T cells from cord blood	blood
30	chr3:146250600-146257400	Weak transcription	Muscle Satellite Cultured Cells	--
31	chr3:146250600-146257600	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
32	chr3:146250600-146258400	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
33	chr3:146250600-146259600	Weak transcription	Primary T cells fromperipheralblood	blood
34	chr3:146250600-146260000	Weak transcription	Thymus	Thymus
35	chr3:146250600-146260800	Weak transcription	Fetal Kidney	kidney
36	chr3:146250800-146256800	Weak transcription	Primary hematopoietic stem cells	blood
37	chr3:146250800-146257000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
38	chr3:146251000-146259200	Weak transcription	Osteobl	bone
39	chr3:146251400-146256800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
40	chr3:146251400-146257600	Weak transcription	Primary B cells from peripheral blood	blood
41	chr3:146251600-146259600	Weak transcription	Colonic Mucosa	Colon
42	chr3:146252000-146256600	Weak transcription	Rectal Mucosa Donor 29	rectum
43	chr3:146252200-146256200	Weak transcription	iPS-20b Cell Line	embryonic stem cell
44	chr3:146252200-146256800	Weak transcription	Rectal Mucosa Donor 31	rectum
45	chr3:146252600-146258800	Weak transcription	NHEK	skin
46	chr3:146252600-146259600	Weak transcription	Psoas Muscle	Psoas
47	chr3:146252800-146255600	Enhancers	HUES64 Cell Line	embryonic stem cell
48	chr3:146252800-146256000	Transcr. at gene 5' and 3'	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
49	chr3:146253000-146257200	Weak transcription	Primary B cells from cord blood	blood
50	chr3:146253200-146256600	Enhancers	Primary neutrophils fromperipheralblood	blood

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