Variant report

Variant	rs6455418
Chromosome Location	chr6:72125387-72125388
allele	A/T
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: 22 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:21)

rs_ID	r²[population]
rs12192535	0.92[ASN][1000 genomes]
rs12214632	0.92[ASN][1000 genomes]
rs1405848	0.93[AFR][1000 genomes];0.94[ASN][1000 genomes]
rs1852578	0.98[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1918478	0.86[ASN][1000 genomes]
rs2222722	1.00[CEU][hapmap];1.00[CHB][hapmap];0.91[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs34602770	0.99[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4291065	0.81[AFR][1000 genomes];0.88[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6902769	0.95[ASN][1000 genomes]
rs6903167	0.95[CEU][hapmap];0.91[CHB][hapmap];0.90[JPT][hapmap];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7349905	0.86[ASN][1000 genomes]
rs763354	0.87[CHB][hapmap];0.86[ASN][1000 genomes]
rs9283841	1.00[CEU][hapmap];1.00[CHB][hapmap];0.90[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9342836	0.87[CHB][hapmap];0.86[ASN][1000 genomes]
rs9351810	0.84[ASN][1000 genomes]
rs9351811	0.85[ASN][1000 genomes]
rs9355001	0.95[CEU][hapmap];0.91[CHB][hapmap];0.90[JPT][hapmap];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9364165	0.83[ASN][1000 genomes]
rs9364166	0.83[ASN][1000 genomes]
rs9364167	0.83[ASN][1000 genomes]
rs9364168	0.83[ASN][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	chr6:72106400-72126800	Weak transcription	Sigmoid Colon	Sigmoid Colon
2	chr6:72106400-72128600	Weak transcription	Fetal Brain Male	brain
3	chr6:72106800-72128600	Weak transcription	Fetal Brain Female	brain
4	chr6:72106800-72128800	Weak transcription	Brain Germinal Matrix	brain
5	chr6:72116200-72128600	Weak transcription	Placenta Amnion	Placenta Amnion
6	chr6:72117600-72128000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
7	chr6:72118200-72127800	Weak transcription	HUES64 Cell Line	embryonic stem cell
8	chr6:72120000-72129000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
9	chr6:72120200-72126600	Weak transcription	Fetal Intestine Small	intestine
10	chr6:72120200-72126600	Weak transcription	Lung	lung
11	chr6:72122400-72127400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
12	chr6:72122400-72128800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
13	chr6:72122600-72126000	Weak transcription	Fetal Stomach	stomach
14	chr6:72122600-72126800	Weak transcription	Rectal Smooth Muscle	rectum
15	chr6:72122600-72126800	Weak transcription	Spleen	Spleen
16	chr6:72122600-72127400	Weak transcription	Brain Cingulate Gyrus	brain
17	chr6:72122600-72128200	Weak transcription	HUES6 Cell Line	embryonic stem cell
18	chr6:72122600-72128800	Weak transcription	Duodenum Mucosa	Duodenum
19	chr6:72122600-72129000	Weak transcription	Gastric	stomach
20	chr6:72123400-72128600	Weak transcription	Brain Inferior Temporal Lobe	brain
21	chr6:72123600-72125400	Genic enhancers	HUVEC	blood vessel
22	chr6:72123600-72127200	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
23	chr6:72124000-72125600	Transcr. at gene 5' and 3'	Breast Myoepithelial Primary Cells	Breast
24	chr6:72124200-72125400	Genic enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
25	chr6:72124200-72125800	Genic enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
26	chr6:72124200-72126200	ZNF genes & repeats	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
27	chr6:72124200-72127000	Strong transcription	NHDF-Ad	bronchial
28	chr6:72124200-72127200	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
29	chr6:72124200-72127200	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
30	chr6:72124400-72125400	Genic enhancers	HSMMtube	muscle
31	chr6:72124400-72127200	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
32	chr6:72124400-72127200	Genic enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
33	chr6:72124400-72127200	Genic enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
34	chr6:72124400-72127200	Strong transcription	Placenta	Placenta
35	chr6:72124600-72125800	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
36	chr6:72124600-72126000	Weak transcription	Right Atrium	heart
37	chr6:72124600-72126600	Genic enhancers	Fetal Kidney	kidney
38	chr6:72124600-72127200	Genic enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
39	chr6:72124600-72127200	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
40	chr6:72124600-72127200	Strong transcription	Fetal Lung	lung
41	chr6:72124600-72127400	Genic enhancers	HMEC	breast
42	chr6:72124800-72125600	Genic enhancers	Liver	Liver
43	chr6:72124800-72126000	Genic enhancers	NHEK	skin
44	chr6:72124800-72126200	Genic enhancers	Osteobl	bone
45	chr6:72124800-72126600	Strong transcription	Left Ventricle	heart
46	chr6:72124800-72126800	Transcr. at gene 5' and 3'	Hela-S3	cervix
47	chr6:72124800-72127000	Strong transcription	Fetal Muscle Leg	muscle
48	chr6:72124800-72127000	Strong transcription	Ovary	ovary
49	chr6:72124800-72127200	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
50	chr6:72124800-72127200	Strong transcription	Adipose Nuclei	Adipose

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