Variant report

Variant	rs8035855
Chromosome Location	chr15:42077961-42077962
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 51 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:40)

rs_ID	r²[population]
rs1107858	0.83[CHB][hapmap];0.85[JPT][hapmap]
rs11634956	0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1197659	0.81[JPT][hapmap]
rs12439771	0.81[JPT][hapmap]
rs12440747	1.00[CHB][hapmap];0.93[JPT][hapmap];0.87[ASN][1000 genomes]
rs12591285	0.81[JPT][hapmap]
rs1531140	0.86[JPT][hapmap]
rs16952372	0.92[CHB][hapmap];0.93[JPT][hapmap]
rs16971976	0.91[CEU][hapmap];0.92[CHB][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.95[MEX][hapmap];0.83[MKK][hapmap];0.97[TSI][hapmap];0.88[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs17676742	1.00[CHB][hapmap];0.93[JPT][hapmap]
rs17677199	1.00[CHB][hapmap];0.93[JPT][hapmap]
rs17677991	1.00[CHB][hapmap];0.93[JPT][hapmap];0.87[ASN][1000 genomes]
rs17678138	1.00[CHB][hapmap];0.93[JPT][hapmap];0.87[ASN][1000 genomes]
rs17678552	1.00[CHB][hapmap];0.93[JPT][hapmap];0.90[ASN][1000 genomes]
rs17734856	0.84[CHB][hapmap];0.86[JPT][hapmap]
rs1918310	0.85[JPT][hapmap];0.81[ASN][1000 genomes]
rs1918312	0.81[JPT][hapmap]
rs1918313	0.81[JPT][hapmap]
rs2077361	0.81[JPT][hapmap]
rs2241522	0.85[JPT][hapmap]
rs2277535	0.85[JPT][hapmap]
rs2303516	0.86[JPT][hapmap]
rs2303518	0.92[CHB][hapmap];0.93[JPT][hapmap];0.82[ASN][1000 genomes]
rs2577949	0.81[JPT][hapmap]
rs2577960	0.85[ASN][1000 genomes]
rs28556632	0.88[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs28700954	0.82[EUR][1000 genomes]
rs28701757	0.84[ASN][1000 genomes]
rs28810086	0.81[ASN][1000 genomes]
rs28850384	0.84[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs3743024	0.85[JPT][hapmap]
rs4923905	1.00[CHB][hapmap];0.93[JPT][hapmap]
rs4923907	0.81[JPT][hapmap]
rs4924564	0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[GIH][hapmap];0.93[JPT][hapmap];0.95[MEX][hapmap];0.97[TSI][hapmap]
rs4924570	0.92[CHB][hapmap];0.93[JPT][hapmap]
rs4924576	0.85[JPT][hapmap]
rs62003900	0.84[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs7171123	0.90[AFR][1000 genomes];0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9672298	0.92[CHB][hapmap];0.93[JPT][hapmap]
rs9672360	0.92[CHB][hapmap];0.93[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:11 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1049514	chr15:41958482-42081210	Weak transcription Strong transcription Active TSS Enhancers Flanking Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	17 gene(s)	inside rSNPs	diseases
2	nsv931223	chr15:41989960-42781757	Enhancers Weak transcription Strong transcription Flanking Active TSS Genic enhancers Bivalent Enhancer Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	81 gene(s)	inside rSNPs	diseases
3	nsv1036086	chr15:42004962-42091451	Strong transcription Weak transcription Flanking Active TSS Active TSS Enhancers Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
4	nsv1054671	chr15:42016097-42098896	Flanking Active TSS Enhancers Weak transcription Strong transcription Genic enhancers Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	18 gene(s)	inside rSNPs	diseases
5	esv2757597	chr15:42047173-42122617	Enhancers Weak transcription Strong transcription Transcr. at gene 5' and 3' Flanking Active TSS Genic enhancers Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	25 gene(s)	inside rSNPs	diseases
6	esv2760027	chr15:42047173-42122617	Flanking Active TSS Weak transcription Enhancers Genic enhancers Strong transcription Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	25 gene(s)	inside rSNPs	diseases
7	nsv904113	chr15:42050390-42118971	Genic enhancers Strong transcription Enhancers Flanking Active TSS Weak transcription Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	19 gene(s)	inside rSNPs	diseases
8	nsv904114	chr15:42050390-42119900	Strong transcription Weak transcription Genic enhancers Enhancers Transcr. at gene 5' and 3' Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	19 gene(s)	inside rSNPs	diseases
9	nsv427958	chr15:42051317-42301283	Strong transcription Weak transcription Enhancers Active TSS Bivalent Enhancer Genic enhancers Flanking Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	45 gene(s)	inside rSNPs	diseases
10	nsv904115	chr15:42076387-42171483	Weak transcription Enhancers Strong transcription Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	23 gene(s)	inside rSNPs	diseases
11	nsv904116	chr15:42076387-42229852	Weak transcription Active TSS Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Genic enhancers Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	25 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs8035855	MGA	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:90 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:42067600-42083000	Weak transcription	Fetal Muscle Trunk	muscle
2	chr15:42068000-42078800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
3	chr15:42068200-42082600	Weak transcription	Placenta Amnion	Placenta Amnion
4	chr15:42068400-42081800	Weak transcription	Rectal Mucosa Donor 31	rectum
5	chr15:42068600-42081600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
6	chr15:42069800-42081800	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
7	chr15:42070000-42081600	Weak transcription	Aorta	Aorta
8	chr15:42070000-42082600	Weak transcription	Primary T cells fromperipheralblood	blood
9	chr15:42070200-42109800	Weak transcription	Fetal Brain Male	brain
10	chr15:42071000-42082400	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
11	chr15:42071000-42082800	Weak transcription	Primary T helper naive cells from peripheral blood	blood
12	chr15:42071000-42092800	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
13	chr15:42071200-42092000	Weak transcription	Brain Germinal Matrix	brain
14	chr15:42072400-42080400	Weak transcription	Primary hematopoietic stem cells	blood
15	chr15:42072400-42080800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
16	chr15:42072400-42081600	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
17	chr15:42072600-42080600	Weak transcription	Primary T cells from cord blood	blood
18	chr15:42072600-42081200	Weak transcription	HSMMtube	muscle
19	chr15:42072600-42081800	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
20	chr15:42072600-42081800	Weak transcription	NH-A	brain
21	chr15:42072600-42082600	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
22	chr15:42072800-42080600	Weak transcription	Brain Anterior Caudate	brain
23	chr15:42072800-42080600	Weak transcription	Left Ventricle	heart
24	chr15:42072800-42080600	Weak transcription	Psoas Muscle	Psoas
25	chr15:42072800-42080600	Weak transcription	Right Ventricle	heart
26	chr15:42072800-42080800	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
27	chr15:42072800-42081600	Weak transcription	Right Atrium	heart
28	chr15:42073000-42080800	Weak transcription	Stomach Smooth Muscle	stomach
29	chr15:42073000-42081000	Weak transcription	Adipose Nuclei	Adipose
30	chr15:42073000-42081200	Weak transcription	Primary T helper cells fromperipheralblood	blood
31	chr15:42073000-42081400	Weak transcription	Fetal Stomach	stomach
32	chr15:42073000-42082600	Weak transcription	A549	lung
33	chr15:42073200-42080600	Weak transcription	Brain Angular Gyrus	brain
34	chr15:42073200-42080600	Weak transcription	Brain Cingulate Gyrus	brain
35	chr15:42073200-42080600	Weak transcription	Brain Inferior Temporal Lobe	brain
36	chr15:42073200-42080600	Weak transcription	Brain Substantia Nigra	brain
37	chr15:42073200-42080600	Weak transcription	Rectal Smooth Muscle	rectum
38	chr15:42073200-42080800	Weak transcription	Colon Smooth Muscle	Colon
39	chr15:42073200-42082600	Weak transcription	Osteobl	bone
40	chr15:42074000-42079800	Weak transcription	HUVEC	blood vessel
41	chr15:42075400-42081000	Weak transcription	Cortex derived primary cultured neurospheres	brain
42	chr15:42075400-42081200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
43	chr15:42075400-42081200	Weak transcription	Dnd41	blood
44	chr15:42075600-42079200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
45	chr15:42075600-42079200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
46	chr15:42075600-42079600	Weak transcription	Primary hematopoietic stem cells short term culture	blood
47	chr15:42075600-42079800	Weak transcription	HMEC	breast
48	chr15:42075600-42080600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
49	chr15:42075600-42080600	Weak transcription	H1 Cell Line	embryonic stem cell
50	chr15:42075600-42080600	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived

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