Variant report

Variant	rs6459405
Chromosome Location	chr6:15299381-15299382
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:10)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:10 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr6:15278983..15281973-chr6:15299059..15301860,2	K562	blood:
2	chr6:15298447..15300545-chr6:15342591..15344623,2	K562	blood:
3	chr6:15267883..15270425-chr6:15297715..15299571,2	K562	blood:
4	chr6:15264475..15267087-chr6:15298287..15299928,2	K562	blood:
5	chr6:15245473..15252079-chr6:15297257..15300680,10	K562	blood:
6	chr6:15246258..15249740-chr6:15297448..15300680,7	K562	blood:
7	chr6:15250579..15252953-chr6:15298506..15301463,2	K562	blood:
8	chr6:15284333..15285955-chr6:15298459..15300664,2	K562	blood:
9	chr6:15253059..15254782-chr6:15298383..15301127,2	K562	blood:
10	chr6:15297995..15299738-chr6:15332305..15334049,2	K562	blood:

No data

Variant related genes	Relation type
ENSG00000235488	Chromatin interaction
ENSG00000008083	Chromatin interaction

Extended variants
information (count: 18 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:9)

rs_ID	r²[population]
rs11759478	0.85[YRI][hapmap]
rs12199895	1.00[YRI][hapmap];0.81[AFR][1000 genomes]
rs55980198	0.80[AFR][1000 genomes]
rs58674331	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6902997	0.85[AFR][1000 genomes]
rs6903550	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6907856	1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6923291	1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6941561	1.00[YRI][hapmap];0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:9 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1027010	chr6:15201803-15425629	Flanking Active TSS Enhancers Weak transcription Active TSS Genic enhancers Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases
2	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
3	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
4	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
5	nsv538142	chr6:15243960-15404893	Weak transcription Enhancers Flanking Active TSS Genic enhancers Active TSS Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases
6	nsv601006	chr6:15275305-15300590	Enhancers Weak transcription Flanking Active TSS Genic enhancers Strong transcription ZNF genes & repeats Active TSS	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
7	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
8	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
9	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:111 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:15281800-15300200	Weak transcription	Fetal Stomach	stomach
2	chr6:15282400-15299400	Weak transcription	Fetal Intestine Small	intestine
3	chr6:15285200-15299400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
4	chr6:15285200-15299400	Weak transcription	A549	lung
5	chr6:15285800-15299400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
6	chr6:15285800-15299800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
7	chr6:15286400-15299400	Weak transcription	NHEK	skin
8	chr6:15286400-15299600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
9	chr6:15288800-15299600	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
10	chr6:15289600-15299400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
11	chr6:15290200-15300400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
12	chr6:15290600-15309400	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
13	chr6:15290800-15299400	Weak transcription	Hela-S3	cervix
14	chr6:15291800-15299400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
15	chr6:15291800-15299600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
16	chr6:15292000-15299600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
17	chr6:15292000-15299600	Weak transcription	HSMM	muscle
18	chr6:15292000-15303600	Weak transcription	Ovary	ovary
19	chr6:15293000-15301200	Enhancers	Primary T helper cells fromperipheralblood	blood
20	chr6:15293000-15302800	Enhancers	Primary monocytes fromperipheralblood	blood
21	chr6:15293600-15302000	Enhancers	Primary B cells from peripheral blood	blood
22	chr6:15294000-15301800	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
23	chr6:15294000-15303400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
24	chr6:15294200-15302200	Enhancers	Primary T helper cells PMA-I stimulated	--
25	chr6:15294400-15299400	Weak transcription	Rectal Mucosa Donor 31	rectum
26	chr6:15294400-15299400	Weak transcription	Stomach Mucosa	stomach
27	chr6:15294400-15299600	Weak transcription	Esophagus	oesophagus
28	chr6:15294400-15299800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
29	chr6:15294400-15299800	Weak transcription	HSMMtube	muscle
30	chr6:15294400-15300200	Weak transcription	Stomach Smooth Muscle	stomach
31	chr6:15294400-15303600	Weak transcription	Brain Germinal Matrix	brain
32	chr6:15294800-15299400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
33	chr6:15294800-15299400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
34	chr6:15295000-15299400	Weak transcription	Brain Inferior Temporal Lobe	brain
35	chr6:15295000-15299400	Weak transcription	Gastric	stomach
36	chr6:15295000-15299600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
37	chr6:15295000-15299600	Weak transcription	Pancreas	Pancrea
38	chr6:15295000-15300000	Weak transcription	Brain Cingulate Gyrus	brain
39	chr6:15295000-15303400	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
40	chr6:15295000-15305600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
41	chr6:15295800-15301000	Enhancers	Fetal Thymus	thymus
42	chr6:15295800-15311400	Enhancers	Primary hematopoietic stem cells	blood
43	chr6:15296000-15301000	Enhancers	Primary T cells fromperipheralblood	blood
44	chr6:15296000-15301000	Enhancers	Primary T helper naive cells fromperipheralblood	blood
45	chr6:15296000-15301600	Enhancers	Primary T killer naive cells fromperipheralblood	blood
46	chr6:15296000-15302200	Enhancers	Primary B cells from cord blood	blood
47	chr6:15296000-15302400	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
48	chr6:15296000-15302800	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
49	chr6:15296200-15301600	Enhancers	Primary T cells from cord blood	blood
50	chr6:15296200-15301800	Enhancers	Primary T helper naive cells from peripheral blood	blood

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