Variant report

Variant	rs6459406
Chromosome Location	chr6:15436141-15436142
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:15424021..15426137-chr6:15433751..15436727,2	K562	blood:
2	chr6:15426491..15428000-chr6:15435400..15438225,2	MCF-7	breast:
3	chr6:15432414..15437643-chr6:15439715..15443191,6	K562	blood:
4	chr6:15364856..15367821-chr6:15434110..15436530,2	K562	blood:
5	chr6:15433530..15436747-chr6:15439990..15443191,3	K562	blood:

Extended variants
information (count: 28 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:22)

rs_ID	r²[population]
rs1474588	0.95[EUR][1000 genomes]
rs2076055	0.80[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs2237117	0.87[EUR][1000 genomes]
rs2237118	0.88[EUR][1000 genomes]
rs2237121	0.88[EUR][1000 genomes]
rs2237124	0.87[EUR][1000 genomes]
rs2237132	0.91[EUR][1000 genomes]
rs2237141	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2237145	0.94[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2237149	0.81[AFR][1000 genomes];0.82[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs2237150	0.83[AFR][1000 genomes];0.80[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs2299045	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2299048	0.80[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs3778652	0.97[EUR][1000 genomes]
rs4085876	0.90[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7754701	0.94[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7754755	0.90[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9349979	0.80[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs9370817	0.88[EUR][1000 genomes]
rs9370819	0.87[EUR][1000 genomes]
rs9383061	0.80[EUR][1000 genomes]
rs9476827	0.95[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv538140	chr6:15217899-15547127	Enhancers Weak transcription Strong transcription Bivalent Enhancer Flanking Active TSS Genic enhancers Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
2	nsv1030558	chr6:15234675-15449137	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Genic enhancers Active TSS Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases
3	nsv538141	chr6:15234675-15509163	Enhancers Weak transcription Strong transcription Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	28 gene(s)	inside rSNPs	diseases
4	nsv949448	chr6:15279490-15449441	Weak transcription Flanking Active TSS Enhancers Genic enhancers Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
5	nsv1025512	chr6:15291551-15452395	Enhancers Weak transcription Strong transcription Genic enhancers Flanking Active TSS Active TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
6	nsv538143	chr6:15291551-15452395	Weak transcription Enhancers Genic enhancers Flanking Active TSS Strong transcription Bivalent Enhancer Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:101 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:15417000-15452200	Enhancers	iPS-15b Cell Line	embryonic stem cell
2	chr6:15424600-15442000	Enhancers	iPS-18 Cell Line	embryonic stem cell
3	chr6:15425600-15445400	Enhancers	Primary monocytes fromperipheralblood	blood
4	chr6:15425800-15437800	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
5	chr6:15426000-15441000	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
6	chr6:15426400-15440400	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
7	chr6:15426400-15442000	Enhancers	Primary B cells from peripheral blood	blood
8	chr6:15427000-15450800	Enhancers	HUES6 Cell Line	embryonic stem cell
9	chr6:15428000-15441800	Enhancers	HUES48 Cell Line	embryonic stem cell
10	chr6:15428400-15436600	Enhancers	Monocytes-CD14+_RO01746	blood
11	chr6:15428400-15437400	Weak transcription	Dnd41	blood
12	chr6:15428800-15441600	Enhancers	iPS-20b Cell Line	embryonic stem cell
13	chr6:15429200-15446000	Enhancers	HUES64 Cell Line	embryonic stem cell
14	chr6:15430200-15439600	Enhancers	Primary hematopoietic stem cells short term culture	blood
15	chr6:15430200-15439600	Weak transcription	NHLF	lung
16	chr6:15430800-15440800	Enhancers	H1 Cell Line	embryonic stem cell
17	chr6:15430800-15441000	Enhancers	H9 Cell Line	embryonic stem cell
18	chr6:15430800-15441600	Enhancers	Primary T helper cells fromperipheralblood	blood
19	chr6:15431000-15441600	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
20	chr6:15431800-15441600	Enhancers	ES-I3 Cell Line	embryonic stem cell
21	chr6:15432000-15436600	Enhancers	Primary T helper naive cells from peripheral blood	blood
22	chr6:15432000-15436800	Enhancers	NHEK	skin
23	chr6:15432400-15437200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
24	chr6:15432400-15439000	Enhancers	ES-WA7 Cell Line	embryonic stem cell
25	chr6:15432400-15441600	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
26	chr6:15432800-15436200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
27	chr6:15432800-15436200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
28	chr6:15432800-15436200	Weak transcription	Esophagus	oesophagus
29	chr6:15432800-15436200	Weak transcription	Pancreas	Pancrea
30	chr6:15432800-15439600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
31	chr6:15433000-15436200	Weak transcription	Liver	Liver
32	chr6:15433000-15436600	Enhancers	HUVEC	blood vessel
33	chr6:15433000-15443200	Weak transcription	Hela-S3	cervix
34	chr6:15433200-15436200	Weak transcription	Gastric	stomach
35	chr6:15433400-15436200	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
36	chr6:15433400-15439800	Weak transcription	Rectal Mucosa Donor 31	rectum
37	chr6:15433600-15436600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
38	chr6:15433600-15437200	Weak transcription	Fetal Kidney	kidney
39	chr6:15433600-15439600	Weak transcription	NHDF-Ad	bronchial
40	chr6:15433800-15436200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
41	chr6:15433800-15436400	Weak transcription	Stomach Mucosa	stomach
42	chr6:15433800-15439400	Weak transcription	Fetal Stomach	stomach
43	chr6:15434000-15436200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
44	chr6:15434000-15436200	Weak transcription	Lung	lung
45	chr6:15434000-15436200	Weak transcription	Skeletal Muscle Female	skeletal muscle
46	chr6:15434000-15436400	Weak transcription	Brain Angular Gyrus	brain
47	chr6:15434000-15436400	Weak transcription	Right Atrium	heart
48	chr6:15434000-15436800	Weak transcription	Brain Cingulate Gyrus	brain
49	chr6:15434000-15439400	Weak transcription	Osteobl	bone
50	chr6:15434000-15441800	Enhancers	Primary T cells from cord blood	blood

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