Variant report

Variant	rs769352
Chromosome Location	chr6:72124598-72124599
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-B3GAT2-3	chr6:72124149-72126262	ENSG00000233237
2	lnc-B3GAT2-3	chr6:72123954-72126262	XLOC_005764
3	lnc-B3GAT2-3	chr6:72124149-72126262	XLOC_005764
4	lnc-B3GAT2-3	chr6:72123874-72126262	NONHSAT113497
5	lnc-B3GAT2-3	chr6:72124148-72126262	ENSG00000233237.2

Extended variants
information (count: 9 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:8)

rs_ID	r²[population]
rs10080965	0.92[AFR][1000 genomes]
rs16881197	0.83[AFR][1000 genomes]
rs59106567	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73520627	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9446383	0.87[ASW][hapmap]
rs9446388	0.90[AFR][1000 genomes]
rs9446390	0.85[AFR][1000 genomes]
rs9455453	0.85[AFR][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv830684	chr6:72094842-72282684	Enhancers Active TSS Weak transcription Flanking Active TSS Bivalent/Poised TSS Strong transcription Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	488 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:78 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:72106000-72124800	Weak transcription	Fetal Muscle Leg	muscle
2	chr6:72106400-72126800	Weak transcription	Sigmoid Colon	Sigmoid Colon
3	chr6:72106400-72128600	Weak transcription	Fetal Brain Male	brain
4	chr6:72106800-72128600	Weak transcription	Fetal Brain Female	brain
5	chr6:72106800-72128800	Weak transcription	Brain Germinal Matrix	brain
6	chr6:72107800-72125000	Weak transcription	Fetal Muscle Trunk	muscle
7	chr6:72114000-72124800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
8	chr6:72114200-72125000	Weak transcription	Brain Angular Gyrus	brain
9	chr6:72115400-72125200	Weak transcription	Fetal Intestine Large	intestine
10	chr6:72116200-72128600	Weak transcription	Placenta Amnion	Placenta Amnion
11	chr6:72117600-72128000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
12	chr6:72118200-72127800	Weak transcription	HUES64 Cell Line	embryonic stem cell
13	chr6:72119000-72125000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
14	chr6:72119800-72125200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
15	chr6:72120000-72129000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
16	chr6:72120200-72126600	Weak transcription	Fetal Intestine Small	intestine
17	chr6:72120200-72126600	Weak transcription	Lung	lung
18	chr6:72121400-72124800	Enhancers	Osteobl	bone
19	chr6:72122000-72125200	Genic enhancers	HSMM	muscle
20	chr6:72122400-72127400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
21	chr6:72122400-72128800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
22	chr6:72122600-72124600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
23	chr6:72122600-72124800	Weak transcription	Left Ventricle	heart
24	chr6:72122600-72124800	Weak transcription	Ovary	ovary
25	chr6:72122600-72125000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
26	chr6:72122600-72125000	Weak transcription	Aorta	Aorta
27	chr6:72122600-72125000	Weak transcription	Brain Substantia Nigra	brain
28	chr6:72122600-72125000	Weak transcription	Pancreas	Pancrea
29	chr6:72122600-72125000	Weak transcription	Psoas Muscle	Psoas
30	chr6:72122600-72125000	Weak transcription	Right Ventricle	heart
31	chr6:72122600-72125200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
32	chr6:72122600-72126000	Weak transcription	Fetal Stomach	stomach
33	chr6:72122600-72126800	Weak transcription	Rectal Smooth Muscle	rectum
34	chr6:72122600-72126800	Weak transcription	Spleen	Spleen
35	chr6:72122600-72127400	Weak transcription	Brain Cingulate Gyrus	brain
36	chr6:72122600-72128200	Weak transcription	HUES6 Cell Line	embryonic stem cell
37	chr6:72122600-72128800	Weak transcription	Duodenum Mucosa	Duodenum
38	chr6:72122600-72129000	Weak transcription	Gastric	stomach
39	chr6:72122800-72125200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
40	chr6:72122800-72125200	Active TSS	A549	lung
41	chr6:72123000-72125000	Weak transcription	Brain Hippocampus Middle	brain
42	chr6:72123400-72124800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
43	chr6:72123400-72124800	Weak transcription	Brain Anterior Caudate	brain
44	chr6:72123400-72124800	Genic enhancers	Hela-S3	cervix
45	chr6:72123400-72124800	Weak transcription	NHEK	skin
46	chr6:72123400-72128600	Weak transcription	Brain Inferior Temporal Lobe	brain
47	chr6:72123600-72124600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
48	chr6:72123600-72125400	Genic enhancers	HUVEC	blood vessel
49	chr6:72123600-72127200	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
50	chr6:72123800-72125200	Genic enhancers	Muscle Satellite Cultured Cells	--

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links