Variant report

Variant	rs9455454
Chromosome Location	chr6:72098429-72098430
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	chr6:72097990-72099383	NONHSAT113497

Extended variants
information (count: 29 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:28)

rs_ID	r²[population]
rs10214508	0.85[EUR][1000 genomes]
rs10485017	1.00[CEU][hapmap];0.92[EUR][1000 genomes]
rs13197578	0.92[EUR][1000 genomes]
rs13202330	0.92[EUR][1000 genomes]
rs13203324	0.93[EUR][1000 genomes]
rs1358379	1.00[CEU][hapmap];0.92[EUR][1000 genomes]
rs1405849	0.92[EUR][1000 genomes]
rs1527708	0.81[EUR][1000 genomes]
rs1527709	0.92[EUR][1000 genomes]
rs1527710	1.00[CEU][hapmap];0.92[EUR][1000 genomes]
rs1527711	1.00[CEU][hapmap];0.92[EUR][1000 genomes]
rs1527713	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16881149	1.00[CEU][hapmap]
rs16881181	1.00[CEU][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs16881235	0.92[EUR][1000 genomes]
rs16881296	0.92[EUR][1000 genomes]
rs1852579	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1881033	0.81[EUR][1000 genomes]
rs2146370	1.00[CEU][hapmap]
rs35217364	0.92[EUR][1000 genomes]
rs35995963	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs6918170	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7765945	1.00[CEU][hapmap];0.92[EUR][1000 genomes]
rs828645	0.80[AFR][1000 genomes]
rs9455448	1.00[CEU][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs9455449	1.00[CEU][hapmap];1.00[YRI][hapmap];0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs9455450	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs980027	1.00[CEU][hapmap];0.92[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:76 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:72076200-72103200	Weak transcription	Aorta	Aorta
2	chr6:72079800-72098800	Weak transcription	Brain Substantia Nigra	brain
3	chr6:72084200-72106600	Weak transcription	Fetal Muscle Trunk	muscle
4	chr6:72084400-72099000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
5	chr6:72085800-72105400	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
6	chr6:72088800-72101000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
7	chr6:72090400-72101000	Weak transcription	Gastric	stomach
8	chr6:72093400-72101200	Genic enhancers	Hela-S3	cervix
9	chr6:72093400-72106400	Weak transcription	Spleen	Spleen
10	chr6:72093600-72099000	Enhancers	Muscle Satellite Cultured Cells	--
11	chr6:72093600-72099000	Weak transcription	Lung	lung
12	chr6:72093600-72099200	Enhancers	HMEC	breast
13	chr6:72094000-72099200	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
14	chr6:72094000-72105200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
15	chr6:72094600-72099600	Enhancers	Fetal Intestine Large	intestine
16	chr6:72094800-72099200	Enhancers	NHDF-Ad	bronchial
17	chr6:72094800-72100200	Enhancers	Fetal Intestine Small	intestine
18	chr6:72095000-72103600	Weak transcription	Stomach Mucosa	stomach
19	chr6:72095200-72099200	Enhancers	Osteobl	bone
20	chr6:72095400-72099000	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
21	chr6:72095400-72103600	Weak transcription	Pancreatic Islets	Pancreatic Islet
22	chr6:72095600-72098800	Weak transcription	Fetal Kidney	kidney
23	chr6:72095600-72099000	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
24	chr6:72095600-72099400	Enhancers	NHEK	skin
25	chr6:72095800-72098800	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
26	chr6:72095800-72099600	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
27	chr6:72096000-72098800	Enhancers	NHLF	lung
28	chr6:72096000-72099400	Enhancers	Duodenum Smooth Muscle	Duodenum
29	chr6:72096200-72098800	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
30	chr6:72096400-72099000	Weak transcription	Brain Inferior Temporal Lobe	brain
31	chr6:72096400-72099400	Enhancers	HUVEC	blood vessel
32	chr6:72096800-72099000	Enhancers	Colon Smooth Muscle	Colon
33	chr6:72096800-72099000	Enhancers	Fetal Lung	lung
34	chr6:72096800-72099400	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
35	chr6:72096800-72106000	Enhancers	Adipose Nuclei	Adipose
36	chr6:72097000-72099000	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
37	chr6:72097000-72101800	Enhancers	Skeletal Muscle Male	skeletal muscle
38	chr6:72097000-72102000	Enhancers	Liver	Liver
39	chr6:72097200-72098600	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
40	chr6:72097200-72098600	Enhancers	Fetal Stomach	stomach
41	chr6:72097200-72098600	Enhancers	HSMM	muscle
42	chr6:72097200-72099200	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
43	chr6:72097200-72102400	Genic enhancers	A549	lung
44	chr6:72097400-72100000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
45	chr6:72097400-72100200	Weak transcription	HUES6 Cell Line	embryonic stem cell
46	chr6:72097400-72100200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
47	chr6:72097400-72102600	Weak transcription	Rectal Smooth Muscle	rectum
48	chr6:72097600-72099000	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
49	chr6:72097600-72103400	Weak transcription	Cortex derived primary cultured neurospheres	brain
50	chr6:72097800-72098600	Enhancers	Brain Anterior Caudate	brain

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