Variant report

Variant	rs7797729
Chromosome Location	chr7:129310092-129310093
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr7:129309215..129312149-chr7:129318307..129320858,2	K562	blood:
2	chr7:129304139..129306866-chr7:129308475..129310745,2	MCF-7	breast:
3	chr7:129304389..129308303-chr7:129309570..129312767,4	K562	blood:
4	chr7:129304757..129307175-chr7:129309618..129311232,2	K562	blood:
5	chr7:129308818..129311766-chr7:129311780..129314074,2	K562	blood:

Extended variants
information (count: 40 )
Associated
traits (count: 1 )

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

rs_ID	r²[population]
rs10224702	0.87[CHB][hapmap];1.00[JPT][hapmap];0.94[YRI][hapmap];0.84[ASN][1000 genomes]
rs10231985	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10234904	0.87[CHB][hapmap];0.95[JPT][hapmap];0.93[YRI][hapmap];0.84[ASN][1000 genomes]
rs10238665	0.86[ASN][1000 genomes]
rs10245818	1.00[ASW][hapmap];0.90[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];1.00[JPT][hapmap];0.94[MEX][hapmap];0.84[MKK][hapmap];1.00[TSI][hapmap];0.88[YRI][hapmap];0.83[ASN][1000 genomes]
rs10250715	0.86[ASN][1000 genomes]
rs10258498	0.91[CHB][hapmap];1.00[JPT][hapmap];0.94[YRI][hapmap];0.84[ASN][1000 genomes]
rs10274906	0.88[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10276606	0.95[CHB][hapmap];0.98[CHD][hapmap];0.91[GIH][hapmap];0.95[JPT][hapmap];0.87[LWK][hapmap];0.84[MEX][hapmap];0.97[MKK][hapmap];0.92[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs10279678	0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11487138	1.00[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];0.93[YRI][hapmap];0.81[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2402964	0.83[CHB][hapmap];0.98[CHD][hapmap];1.00[JPT][hapmap];0.83[ASN][1000 genomes]
rs28480046	0.80[ASN][1000 genomes]
rs28689822	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs55853524	0.97[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs56028831	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs56099086	0.99[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56271323	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs57241718	0.88[AFR][1000 genomes];0.97[AMR][1000 genomes];0.93[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs58660194	0.96[AFR][1000 genomes];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs60362426	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs62489268	0.97[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6942490	1.00[ASW][hapmap];0.84[CEU][hapmap];0.95[CHB][hapmap];0.95[CHD][hapmap];0.86[JPT][hapmap];0.89[MEX][hapmap];0.90[TSI][hapmap]
rs6953077	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6955093	0.86[ASN][1000 genomes]
rs6961403	0.84[CEU][hapmap];0.82[CHB][hapmap];0.84[MEX][hapmap];0.90[TSI][hapmap]
rs6969098	0.90[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[YRI][hapmap];0.86[AMR][1000 genomes];0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs6976507	0.84[CEU][hapmap];0.95[CHB][hapmap];0.86[JPT][hapmap]
rs6979455	0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs73159612	0.83[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs73159622	0.99[ASN][1000 genomes]
rs7459234	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs753947	1.00[ASW][hapmap];0.84[CEU][hapmap];0.95[CHB][hapmap];0.95[CHD][hapmap];1.00[JPT][hapmap];0.94[MEX][hapmap];0.95[TSI][hapmap];0.81[ASN][1000 genomes]
rs7777812	0.91[CHB][hapmap];1.00[CHD][hapmap];0.94[GIH][hapmap];1.00[JPT][hapmap];0.83[LWK][hapmap];0.83[MKK][hapmap];0.94[YRI][hapmap];0.84[ASN][1000 genomes]
rs7782066	0.85[ASN][1000 genomes]
rs7784920	0.90[AFR][1000 genomes];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7792411	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7795187	0.85[ASN][1000 genomes]
rs7796553	0.84[ASW][hapmap];0.91[CHB][hapmap];1.00[CHD][hapmap];0.94[GIH][hapmap];1.00[JPT][hapmap];0.87[LWK][hapmap];0.83[MKK][hapmap];0.94[YRI][hapmap];0.84[ASN][1000 genomes]
rs7800226	0.84[CEU][hapmap];0.91[CHB][hapmap];1.00[JPT][hapmap];0.94[YRI][hapmap];0.86[AFR][1000 genomes];0.88[EUR][1000 genomes];0.92[ASN][1000 genomes]

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs7797729	OPN1SW	cis	cerebellum	SCAN

Chromatin state (count:123 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:129283800-129331600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
2	chr7:129289200-129314000	Weak transcription	Fetal Brain Male	brain
3	chr7:129290000-129325800	Weak transcription	Stomach Mucosa	stomach
4	chr7:129293800-129311200	Weak transcription	Brain Anterior Caudate	brain
5	chr7:129293800-129311400	Weak transcription	Brain Angular Gyrus	brain
6	chr7:129297800-129349800	Weak transcription	Small Intestine	intestine
7	chr7:129299800-129311400	Weak transcription	Colon Smooth Muscle	Colon
8	chr7:129300000-129314000	Weak transcription	Placenta Amnion	Placenta Amnion
9	chr7:129300600-129311800	Weak transcription	Pancreas	Pancrea
10	chr7:129301000-129330200	Weak transcription	Gastric	stomach
11	chr7:129301200-129311200	Weak transcription	Right Ventricle	heart
12	chr7:129301200-129312600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
13	chr7:129301800-129311800	Weak transcription	Brain Inferior Temporal Lobe	brain
14	chr7:129302000-129310400	Weak transcription	Pancreatic Islets	Pancreatic Islet
15	chr7:129302000-129310600	Weak transcription	Primary hematopoietic stem cells	blood
16	chr7:129302000-129311200	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
17	chr7:129302000-129311200	Weak transcription	Brain Hippocampus Middle	brain
18	chr7:129302000-129311200	Weak transcription	Duodenum Mucosa	Duodenum
19	chr7:129302000-129311200	Weak transcription	Duodenum Smooth Muscle	Duodenum
20	chr7:129302000-129311200	Weak transcription	Fetal Stomach	stomach
21	chr7:129302000-129311200	Weak transcription	Left Ventricle	heart
22	chr7:129302000-129311200	Weak transcription	Rectal Mucosa Donor 29	rectum
23	chr7:129302000-129311200	Weak transcription	Sigmoid Colon	Sigmoid Colon
24	chr7:129302000-129311200	Weak transcription	Skeletal Muscle Male	skeletal muscle
25	chr7:129302000-129311400	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
26	chr7:129302000-129311400	Weak transcription	Brain Substantia Nigra	brain
27	chr7:129302000-129311600	Weak transcription	Brain Germinal Matrix	brain
28	chr7:129302000-129311800	Weak transcription	Spleen	Spleen
29	chr7:129302000-129312400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
30	chr7:129302000-129314200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
31	chr7:129302000-129314200	Weak transcription	Psoas Muscle	Psoas
32	chr7:129302000-129314200	Weak transcription	Rectal Smooth Muscle	rectum
33	chr7:129302000-129314400	Weak transcription	Aorta	Aorta
34	chr7:129302000-129314600	Weak transcription	Skeletal Muscle Female	skeletal muscle
35	chr7:129302000-129314800	Weak transcription	Brain Cingulate Gyrus	brain
36	chr7:129302000-129315400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
37	chr7:129302000-129317000	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
38	chr7:129302000-129331800	Weak transcription	Esophagus	oesophagus
39	chr7:129302200-129310600	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
40	chr7:129302200-129311000	Weak transcription	Primary B cells from peripheral blood	blood
41	chr7:129302200-129311200	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
42	chr7:129302200-129311200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
43	chr7:129302200-129311200	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
44	chr7:129302200-129311200	Weak transcription	Primary T helper cells PMA-I stimulated	--
45	chr7:129302200-129311200	Weak transcription	Primary T helper cells fromperipheralblood	blood
46	chr7:129302200-129311200	Weak transcription	Adipose Nuclei	Adipose
47	chr7:129302200-129311200	Weak transcription	Liver	Liver
48	chr7:129302200-129311200	Weak transcription	Thymus	Thymus
49	chr7:129302200-129311200	Weak transcription	HepG2	liver
50	chr7:129302200-129311400	Weak transcription	Primary T helper naive cells from peripheral blood	blood

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