Variant report

Variant	rs1527709
Chromosome Location	chr6:72119958-72119959
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	chr6:72118646-72122251	NONHSAT113497

Extended variants
information (count: 26 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:25)

rs_ID	r²[population]
rs10214508	0.92[EUR][1000 genomes]
rs10485017	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13197578	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13202330	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13203324	0.85[EUR][1000 genomes]
rs1358379	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1405847	0.90[AFR][1000 genomes]
rs1405849	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1527708	0.89[EUR][1000 genomes]
rs1527710	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1527711	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1527713	0.92[EUR][1000 genomes]
rs16881235	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16881296	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1852579	0.92[EUR][1000 genomes]
rs1881033	0.89[EUR][1000 genomes]
rs35217364	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs35663023	0.85[EUR][1000 genomes]
rs35995963	0.96[EUR][1000 genomes]
rs6918170	0.92[EUR][1000 genomes]
rs71555485	0.85[EUR][1000 genomes]
rs765466	0.86[AFR][1000 genomes]
rs7765945	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9455454	0.92[EUR][1000 genomes]
rs980027	1.00[AMR][1000 genomes];1.00[EUR][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:85 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:72104000-72122000	Weak transcription	Fetal Stomach	stomach
2	chr6:72106000-72124800	Weak transcription	Fetal Muscle Leg	muscle
3	chr6:72106400-72126800	Weak transcription	Sigmoid Colon	Sigmoid Colon
4	chr6:72106400-72128600	Weak transcription	Fetal Brain Male	brain
5	chr6:72106600-72122000	Weak transcription	Brain Substantia Nigra	brain
6	chr6:72106800-72122000	Weak transcription	Brain Cingulate Gyrus	brain
7	chr6:72106800-72128600	Weak transcription	Fetal Brain Female	brain
8	chr6:72106800-72128800	Weak transcription	Brain Germinal Matrix	brain
9	chr6:72107800-72125000	Weak transcription	Fetal Muscle Trunk	muscle
10	chr6:72114000-72124800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
11	chr6:72114200-72120600	Weak transcription	Aorta	Aorta
12	chr6:72114200-72122200	Weak transcription	Right Atrium	heart
13	chr6:72114200-72125000	Weak transcription	Brain Angular Gyrus	brain
14	chr6:72114600-72121600	Weak transcription	Colon Smooth Muscle	Colon
15	chr6:72114600-72121800	Weak transcription	Rectal Smooth Muscle	rectum
16	chr6:72114800-72121800	Weak transcription	Ovary	ovary
17	chr6:72115200-72121800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
18	chr6:72115400-72121800	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
19	chr6:72115400-72121800	Weak transcription	Fetal Heart	heart
20	chr6:72115400-72125200	Weak transcription	Fetal Intestine Large	intestine
21	chr6:72115600-72121400	Weak transcription	Liver	Liver
22	chr6:72115600-72123000	Genic enhancers	Muscle Satellite Cultured Cells	--
23	chr6:72115800-72120400	Genic enhancers	Breast Myoepithelial Primary Cells	Breast
24	chr6:72116200-72128600	Weak transcription	Placenta Amnion	Placenta Amnion
25	chr6:72117200-72122400	Weak transcription	Brain Inferior Temporal Lobe	brain
26	chr6:72117400-72121000	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
27	chr6:72117400-72121800	Weak transcription	Gastric	stomach
28	chr6:72117400-72121800	Weak transcription	Spleen	Spleen
29	chr6:72117400-72122200	Weak transcription	Esophagus	oesophagus
30	chr6:72117600-72121800	Weak transcription	H1 Cell Line	embryonic stem cell
31	chr6:72117600-72121800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
32	chr6:72117600-72121800	Genic enhancers	Hela-S3	cervix
33	chr6:72117600-72122200	Weak transcription	HUES48 Cell Line	embryonic stem cell
34	chr6:72117600-72122200	Weak transcription	HUES6 Cell Line	embryonic stem cell
35	chr6:72117600-72128000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
36	chr6:72118200-72120800	Genic enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
37	chr6:72118200-72122400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
38	chr6:72118200-72122800	Genic enhancers	HMEC	breast
39	chr6:72118200-72127800	Weak transcription	HUES64 Cell Line	embryonic stem cell
40	chr6:72118400-72120800	Genic enhancers	Fetal Kidney	kidney
41	chr6:72118400-72121200	Genic enhancers	HSMM	muscle
42	chr6:72118400-72123200	Genic enhancers	HUVEC	blood vessel
43	chr6:72118600-72120000	Enhancers	Small Intestine	intestine
44	chr6:72118600-72120200	Genic enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
45	chr6:72118600-72120200	Genic enhancers	NHEK	skin
46	chr6:72118600-72120400	Genic enhancers	Skeletal Muscle Male	skeletal muscle
47	chr6:72118600-72120800	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
48	chr6:72118600-72121400	Genic enhancers	Osteobl	bone
49	chr6:72118600-72122600	Genic enhancers	NH-A	brain
50	chr6:72118600-72122600	Genic enhancers	NHDF-Ad	bronchial

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