Variant report

Variant	rs7790500
Chromosome Location	chr7:30613455-30613456
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-GGCT-1	chr7:30611839-30614499	NONHSAT119880
2	lnc-GGCT-1	chr7:30612616-30614037	NONHSAT119906

Extended variants
information (count: 20 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:17)

rs_ID	r²[population]
rs10280491	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs10487699	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs10487700	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs11976576	1.00[EUR][1000 genomes]
rs11979352	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs11981106	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs16875290	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs17159289	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs17159291	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs1859644	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs28641099	0.93[EUR][1000 genomes]
rs58448176	0.93[EUR][1000 genomes]
rs6462211	0.89[YRI][hapmap]
rs6945223	0.93[EUR][1000 genomes]
rs6947108	1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.94[AMR][1000 genomes]
rs6956054	0.93[YRI][hapmap];0.88[AFR][1000 genomes];0.82[AMR][1000 genomes]
rs7809256	1.00[CEU][hapmap];0.93[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv538811	chr7:30549595-31405593	Transcr. at gene 5' and 3' Enhancers Weak transcription Strong transcription Active TSS Genic enhancers Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	40 gene(s)	inside rSNPs	diseases
2	nsv1024458	chr7:30601877-30649659	Weak transcription Strong transcription Active TSS Genic enhancers ZNF genes & repeats Flanking Active TSS Enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
3	esv3417912	chr7:30612318-30619224	Weak transcription Strong transcription ZNF genes & repeats Enhancers	TF binding region CpG island lncRNA	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:117 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:30586600-30620400	Weak transcription	Fetal Thymus	thymus
2	chr7:30591200-30633400	Weak transcription	Psoas Muscle	Psoas
3	chr7:30596600-30614400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
4	chr7:30597400-30633200	Weak transcription	Pancreatic Islets	Pancreatic Islet
5	chr7:30597600-30624400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
6	chr7:30598400-30623600	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
7	chr7:30599400-30617400	Weak transcription	Placenta Amnion	Placenta Amnion
8	chr7:30601800-30633000	Weak transcription	Hela-S3	cervix
9	chr7:30602800-30615400	Weak transcription	Fetal Brain Female	brain
10	chr7:30602800-30616200	Weak transcription	Fetal Brain Male	brain
11	chr7:30603200-30621000	Weak transcription	Primary T helper naive cells from peripheral blood	blood
12	chr7:30603200-30628400	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
13	chr7:30604000-30613600	Weak transcription	Muscle Satellite Cultured Cells	--
14	chr7:30604000-30615000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
15	chr7:30604000-30615200	Weak transcription	HepG2	liver
16	chr7:30604000-30615200	Weak transcription	NHEK	skin
17	chr7:30604000-30615400	Weak transcription	NHDF-Ad	bronchial
18	chr7:30604600-30617800	Weak transcription	Right Ventricle	heart
19	chr7:30604600-30624400	Weak transcription	Gastric	stomach
20	chr7:30605600-30628200	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
21	chr7:30607000-30614400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
22	chr7:30607000-30617400	Weak transcription	Esophagus	oesophagus
23	chr7:30607000-30617600	Weak transcription	Skeletal Muscle Male	skeletal muscle
24	chr7:30607000-30633400	Weak transcription	Fetal Kidney	kidney
25	chr7:30607600-30617400	Weak transcription	Brain Angular Gyrus	brain
26	chr7:30608200-30617400	Weak transcription	NHLF	lung
27	chr7:30608200-30618400	Weak transcription	Brain Substantia Nigra	brain
28	chr7:30608400-30613600	Weak transcription	Primary T helper cells PMA-I stimulated	--
29	chr7:30608400-30615600	Weak transcription	Fetal Lung	lung
30	chr7:30608400-30616600	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
31	chr7:30608400-30617400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
32	chr7:30608400-30617400	Weak transcription	Pancreas	Pancrea
33	chr7:30608400-30617400	Weak transcription	Spleen	Spleen
34	chr7:30608400-30617600	Weak transcription	Brain Anterior Caudate	brain
35	chr7:30608600-30617400	Weak transcription	Rectal Smooth Muscle	rectum
36	chr7:30608600-30618000	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
37	chr7:30609800-30614600	Strong transcription	Liver	Liver
38	chr7:30609800-30621400	Weak transcription	K562	blood
39	chr7:30610200-30614800	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
40	chr7:30610400-30616200	Weak transcription	HSMM	muscle
41	chr7:30610400-30617400	Weak transcription	Lung	lung
42	chr7:30610400-30617400	Weak transcription	Thymus	Thymus
43	chr7:30610600-30617400	Weak transcription	Fetal Intestine Small	intestine
44	chr7:30610600-30617400	Weak transcription	Small Intestine	intestine
45	chr7:30610600-30617400	Weak transcription	NH-A	brain
46	chr7:30610800-30613800	Strong transcription	Monocytes-CD14+_RO01746	blood
47	chr7:30611000-30613600	Weak transcription	Primary B cells from peripheral blood	blood
48	chr7:30611000-30613600	Weak transcription	Skeletal Muscle Female	skeletal muscle
49	chr7:30612000-30614000	Strong transcription	Cortex derived primary cultured neurospheres	brain
50	chr7:30612000-30614000	Strong transcription	Aorta	Aorta

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