Variant report

Variant	rs208356
Chromosome Location	chr7:2775825-2775826
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr7:2773431..2776553-chr7:2903290..2905361,3	K562	blood:
2	chr7:2775731..2778086-chr7:2883079..2885342,2	MCF-7	breast:
3	chr7:2772073..2775942-chr7:2781505..2783799,3	K562	blood:
4	chr7:2768256..2774537-chr7:2775031..2780281,7	K562	blood:
5	chr7:2774700..2776614-chr7:2776650..2778258,3	K562	blood:
6	chr7:2756196..2760316-chr7:2775723..2779597,5	K562	blood:

Variant related genes	Relation type
ENSG00000146535	Chromatin interaction

Extended variants
information (count: 54 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:46)

rs_ID	r²[population]
rs1182206	0.86[CHB][hapmap];0.94[JPT][hapmap];0.92[YRI][hapmap];0.83[ASN][1000 genomes]
rs208345	0.82[CHB][hapmap]
rs208346	0.91[CHB][hapmap];0.94[JPT][hapmap];0.94[ASN][1000 genomes]
rs208354	0.90[CHB][hapmap]
rs208358	0.82[YRI][hapmap]
rs2251718	0.83[ASN][1000 genomes]
rs2255541	0.91[CHB][hapmap];0.88[JPT][hapmap];0.92[YRI][hapmap];0.83[ASN][1000 genomes]
rs2255782	0.91[CHB][hapmap];0.85[JPT][hapmap];0.83[YRI][hapmap];0.83[ASN][1000 genomes]
rs2258709	0.83[CHB][hapmap]
rs2258960	0.82[CHB][hapmap];0.94[JPT][hapmap];0.96[YRI][hapmap];0.84[ASN][1000 genomes]
rs2266923	0.83[CHB][hapmap];0.84[JPT][hapmap];0.81[ASN][1000 genomes]
rs2266925	0.86[CHB][hapmap]
rs2527682	0.81[ASN][1000 genomes]
rs2527686	0.83[CHB][hapmap];0.84[JPT][hapmap]
rs2527689	0.91[CHB][hapmap];1.00[JPT][hapmap];0.92[YRI][hapmap];0.81[ASN][1000 genomes]
rs2533886	0.83[CHB][hapmap];0.84[JPT][hapmap]
rs2533888	0.83[CHB][hapmap];0.84[JPT][hapmap]
rs2644272	0.91[CHB][hapmap];0.94[JPT][hapmap];0.82[ASN][1000 genomes]
rs2644276	0.83[ASN][1000 genomes]
rs2644306	0.84[CHB][hapmap]
rs2644311	0.91[CHB][hapmap];0.89[JPT][hapmap];0.92[YRI][hapmap];0.82[ASN][1000 genomes]
rs2693566	0.95[ASN][1000 genomes]
rs3846992	0.83[CHB][hapmap];0.90[JPT][hapmap];0.86[YRI][hapmap];0.85[ASN][1000 genomes]
rs709280	1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs709281	0.97[ASN][1000 genomes]
rs757786	0.83[CHB][hapmap]
rs757789	0.84[ASN][1000 genomes]
rs757790	0.81[ASN][1000 genomes]
rs7790322	0.84[CHB][hapmap]
rs798501	0.94[ASN][1000 genomes]
rs798509	0.98[ASN][1000 genomes]
rs798515	1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs798516	0.98[ASN][1000 genomes]
rs798517	1.00[CHB][hapmap];0.94[JPT][hapmap];0.90[YRI][hapmap];0.97[ASN][1000 genomes]
rs798519	1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[YRI][hapmap];1.00[ASN][1000 genomes]
rs798520	0.97[ASN][1000 genomes]
rs798521	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.88[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs798522	1.00[CHB][hapmap];0.94[JPT][hapmap];0.97[ASN][1000 genomes]
rs798523	0.88[AFR][1000 genomes];0.97[ASN][1000 genomes]
rs798524	0.88[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs798525	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.83[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs798527	1.00[CHB][hapmap];0.94[JPT][hapmap];0.96[ASN][1000 genomes]
rs798529	0.99[ASN][1000 genomes]
rs798530	1.00[CHB][hapmap];0.89[JPT][hapmap];0.96[ASN][1000 genomes]
rs798532	0.86[CHB][hapmap]
rs798549	0.82[CHB][hapmap]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1029250	chr7:2722737-2881021	Weak transcription Strong transcription Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Enhancers Flanking Active TSS Active TSS Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
2	nsv538652	chr7:2722737-2881021	Strong transcription Flanking Active TSS Weak transcription Enhancers Genic enhancers Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
3	nsv1024023	chr7:2726210-2829581	Strong transcription Weak transcription Enhancers Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
4	nsv538653	chr7:2726210-2829581	Enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Weak transcription Transcr. at gene 5' and 3' Strong transcription Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
5	nsv1017611	chr7:2750418-2781716	Weak transcription Genic enhancers Flanking Active TSS Enhancers Strong transcription ZNF genes & repeats Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
6	nsv538654	chr7:2750418-2781716	Strong transcription Enhancers Weak transcription Bivalent Enhancer Genic enhancers ZNF genes & repeats Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Transcr. at gene 5' and 3'	Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
7	nsv1015700	chr7:2753965-2945848	Flanking Active TSS Strong transcription Active TSS Enhancers Genic enhancers Weak transcription Bivalent Enhancer 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	30 gene(s)	inside rSNPs	diseases
8	nsv605872	chr7:2770899-2776698	Strong transcription Enhancers Flanking Active TSS ZNF genes & repeats Weak transcription Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs208356	GNA12	cis	Artery Tibial	GTEx

Chromatin state (count:101 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:2752400-2796000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr7:2756000-2777800	Weak transcription	Psoas Muscle	Psoas
3	chr7:2761000-2796200	Weak transcription	Hela-S3	cervix
4	chr7:2761000-2797000	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
5	chr7:2768400-2776600	Genic enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
6	chr7:2771000-2780400	Weak transcription	Aorta	Aorta
7	chr7:2771200-2776200	Enhancers	Placenta	Placenta
8	chr7:2771200-2777400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
9	chr7:2771200-2779400	Enhancers	Primary hematopoietic stem cells	blood
10	chr7:2771200-2782200	Weak transcription	Pancreatic Islets	Pancreatic Islet
11	chr7:2771200-2783200	Weak transcription	HUES64 Cell Line	embryonic stem cell
12	chr7:2771200-2796200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
13	chr7:2771400-2780600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
14	chr7:2771400-2782400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
15	chr7:2771400-2785000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
16	chr7:2771400-2796200	Weak transcription	NHEK	skin
17	chr7:2771600-2777800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
18	chr7:2771600-2781800	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
19	chr7:2772000-2776600	Enhancers	Cortex derived primary cultured neurospheres	brain
20	chr7:2772000-2776800	Enhancers	Right Atrium	heart
21	chr7:2772200-2776600	Enhancers	Lung	lung
22	chr7:2772200-2776800	Enhancers	Left Ventricle	heart
23	chr7:2772400-2780400	Weak transcription	HMEC	breast
24	chr7:2772600-2776800	Enhancers	Fetal Heart	heart
25	chr7:2772600-2777000	Enhancers	Fetal Muscle Leg	muscle
26	chr7:2772800-2776200	Enhancers	Spleen	Spleen
27	chr7:2772800-2776600	Enhancers	Brain Angular Gyrus	brain
28	chr7:2772800-2776800	Enhancers	Brain Anterior Caudate	brain
29	chr7:2772800-2783200	Weak transcription	iPS-20b Cell Line	embryonic stem cell
30	chr7:2773000-2776800	Genic enhancers	Fetal Stomach	stomach
31	chr7:2773200-2776600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
32	chr7:2773200-2776600	Enhancers	Fetal Muscle Trunk	muscle
33	chr7:2773200-2776800	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
34	chr7:2773200-2778800	Enhancers	Primary B cells from peripheral blood	blood
35	chr7:2773200-2782400	Weak transcription	HUES48 Cell Line	embryonic stem cell
36	chr7:2773200-2783200	Weak transcription	H9 Cell Line	embryonic stem cell
37	chr7:2773200-2796200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
38	chr7:2773200-2796400	Weak transcription	NH-A	brain
39	chr7:2773200-2797000	Weak transcription	Pancreas	Pancrea
40	chr7:2773400-2776200	Enhancers	Right Ventricle	heart
41	chr7:2773400-2776800	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
42	chr7:2773600-2776800	Genic enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
43	chr7:2773600-2777800	Weak transcription	Stomach Mucosa	stomach
44	chr7:2773600-2778600	Enhancers	Primary B cells from cord blood	blood
45	chr7:2773600-2796400	Weak transcription	Osteobl	bone
46	chr7:2773800-2776400	Enhancers	Brain Hippocampus Middle	brain
47	chr7:2774000-2776000	Flanking Active TSS	Dnd41	blood
48	chr7:2774000-2776400	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
49	chr7:2774000-2776600	Enhancers	Brain Inferior Temporal Lobe	brain
50	chr7:2774000-2777000	Enhancers	Fetal Thymus	thymus

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