Variant report

Variant	rs9468175
Chromosome Location	chr6:27585799-27585800
allele	A/C
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:12)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:12 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr6:27585095..27585874-chr6:27654939..27655471,2	MCF-7	breast:
2	chr6:27583659..27587371-chr6:27597260..27601233,4	K562	blood:
3	chr6:27585590..27586102-chr6:27759830..27760472,2	MCF-7	breast:
4	chr6:27585302..27586142-chr6:27655326..27655973,2	K562	blood:
5	chr6:27569083..27571892-chr6:27582628..27586229,3	K562	blood:
6	chr6:27583544..27586615-chr6:27617809..27619941,3	K562	blood:
7	chr6:27585304..27588262-chr6:27590023..27594531,5	K562	blood:
8	chr6:27585038..27585933-chr6:27654899..27655854,3	MCF-7	breast:
9	chr6:27572695..27575241-chr6:27583548..27587742,4	K562	blood:
10	chr6:27583544..27586200-chr6:27617809..27619941,2	K562	blood:
11	chr6:27572199..27574195-chr6:27584979..27586709,2	K562	blood:
12	chr6:27584017..27586376-chr6:27774964..27777564,2	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000238648	Chromatin interaction
ENSG00000196747	Chromatin interaction
ENSG00000185130	Chromatin interaction

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

rSNPs within LD-proxies of this variant (count:16)

rs_ID	r²[population]
rs2021835	1.00[YRI][hapmap]
rs9295737	1.00[CEU][hapmap];1.00[YRI][hapmap];0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs9461385	1.00[ASN][1000 genomes]
rs9461403	1.00[YRI][hapmap];1.00[ASN][1000 genomes]
rs9461412	1.00[YRI][hapmap]
rs9468118	1.00[ASN][1000 genomes]
rs9468120	1.00[ASN][1000 genomes]
rs9468127	1.00[ASN][1000 genomes]
rs9468128	1.00[ASN][1000 genomes]
rs9468132	1.00[ASN][1000 genomes]
rs9468137	1.00[ASN][1000 genomes]
rs9468143	1.00[ASN][1000 genomes]
rs9468144	1.00[ASN][1000 genomes]
rs9468171	0.81[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs9468177	1.00[CEU][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9468226	0.92[YRI][hapmap]

Variant overlapped rSNPs/rCNVs (count:12 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1022797	chr6:27396961-27864277	Enhancers Weak transcription Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Flanking Active TSS Active TSS ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	390 gene(s)	inside rSNPs	diseases
2	nsv830617	chr6:27424769-27598595	Active TSS Enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Weak transcription Bivalent/Poised TSS Flanking Active TSS Strong transcription Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	35 gene(s)	inside rSNPs	diseases
3	nsv1030256	chr6:27477726-27605842	Bivalent Enhancer Active TSS Enhancers Flanking Bivalent TSS/Enh Weak transcription Bivalent/Poised TSS Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	25 gene(s)	inside rSNPs	diseases
4	nsv1025862	chr6:27480227-27605321	Active TSS Bivalent Enhancer Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Weak transcription Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	25 gene(s)	inside rSNPs	diseases
5	nsv1017347	chr6:27483816-27605842	Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Active TSS Bivalent Enhancer Weak transcription Enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	25 gene(s)	inside rSNPs	diseases
6	nsv1025572	chr6:27487852-27604454	Active TSS Weak transcription Enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Flanking Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	25 gene(s)	inside rSNPs	diseases
7	nsv538167	chr6:27487852-27604454	Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent Enhancer Active TSS Bivalent/Poised TSS Enhancers Weak transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	25 gene(s)	inside rSNPs	diseases
8	nsv883509	chr6:27492906-27586181	Bivalent Enhancer Flanking Active TSS Enhancers Bivalent/Poised TSS Weak transcription Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	24 gene(s)	inside rSNPs	diseases
9	nsv1018107	chr6:27503525-27596736	Flanking Active TSS Bivalent Enhancer Enhancers Active TSS Bivalent/Poised TSS Weak transcription Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	24 gene(s)	inside rSNPs	diseases
10	nsv538168	chr6:27503525-27596736	Enhancers Bivalent/Poised TSS Active TSS Weak transcription Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	24 gene(s)	inside rSNPs	diseases
11	nsv883510	chr6:27550712-27730064	Enhancers Weak transcription Flanking Bivalent TSS/Enh Active TSS Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Strong transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	37 gene(s)	inside rSNPs	diseases
12	nsv1023673	chr6:27570731-27688782	Flanking Active TSS Flanking Bivalent TSS/Enh Strong transcription Weak transcription Enhancers Bivalent Enhancer Bivalent/Poised TSS Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	34 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:100 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:27584200-27586400	Active TSS	H1 Cell Line	embryonic stem cell
2	chr6:27584400-27586200	Active TSS	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
3	chr6:27584400-27586600	Active TSS	H9 Cell Line	embryonic stem cell
4	chr6:27584600-27585800	Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
5	chr6:27584600-27585800	Active TSS	Foreskin Fibroblast Primary Cells skin02	Skin
6	chr6:27584600-27586000	Bivalent/Poised TSS	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
7	chr6:27584600-27586000	Active TSS	NHDF-Ad	bronchial
8	chr6:27584600-27586200	Bivalent/Poised TSS	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
9	chr6:27584600-27586200	Active TSS	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
10	chr6:27584600-27586200	Active TSS	ES-UCSF4 Cell Line	embryonic stem cell
11	chr6:27584600-27586200	Active TSS	GM12878-XiMat	blood
12	chr6:27584600-27586200	Active TSS	HSMM	muscle
13	chr6:27584600-27586200	Active TSS	HSMMtube	muscle
14	chr6:27584600-27586400	Active TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
15	chr6:27584600-27586400	Active TSS	Foreskin Keratinocyte Primary Cells skin03	Skin
16	chr6:27584600-27586600	Active TSS	ES-WA7 Cell Line	embryonic stem cell
17	chr6:27584600-27586600	Active TSS	HUES48 Cell Line	embryonic stem cell
18	chr6:27584600-27586600	Active TSS	iPS-20b Cell Line	embryonic stem cell
19	chr6:27584600-27586600	Active TSS	iPS DF 6.9 Cell Line	embryonic stem cell
20	chr6:27584600-27586800	Active TSS	iPS-15b Cell Line	embryonic stem cell
21	chr6:27584800-27585800	Active TSS	IMR90 fetal lung fibroblasts Cell Line	lung
22	chr6:27584800-27585800	Active TSS	Muscle Satellite Cultured Cells	--
23	chr6:27584800-27585800	Bivalent/Poised TSS	Brain Inferior Temporal Lobe	brain
24	chr6:27584800-27585800	Bivalent/Poised TSS	Brain Substantia Nigra	brain
25	chr6:27584800-27585800	Bivalent/Poised TSS	Fetal Lung	lung
26	chr6:27584800-27585800	Bivalent/Poised TSS	Fetal Stomach	stomach
27	chr6:27584800-27585800	Active TSS	Rectal Mucosa Donor 29	rectum
28	chr6:27584800-27585800	Bivalent/Poised TSS	Skeletal Muscle Female	skeletal muscle
29	chr6:27584800-27585800	Active TSS	Osteobl	bone
30	chr6:27584800-27586000	Active TSS	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
31	chr6:27584800-27586000	Bivalent Enhancer	Primary T cells fromperipheralblood	blood
32	chr6:27584800-27586000	Bivalent Enhancer	Primary T helper cells PMA-I stimulated	--
33	chr6:27584800-27586000	Bivalent/Poised TSS	Brain Germinal Matrix	brain
34	chr6:27584800-27586000	Bivalent/Poised TSS	Fetal Brain Female	brain
35	chr6:27584800-27586000	Bivalent/Poised TSS	Fetal Intestine Small	intestine
36	chr6:27584800-27586000	Bivalent/Poised TSS	Left Ventricle	heart
37	chr6:27584800-27586000	Bivalent/Poised TSS	Psoas Muscle	Psoas
38	chr6:27584800-27586000	Active TSS	Right Atrium	heart
39	chr6:27584800-27586200	Active TSS	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
40	chr6:27584800-27586200	Active TSS	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
41	chr6:27584800-27586200	Bivalent Enhancer	Primary B cells from peripheral blood	blood
42	chr6:27584800-27586200	Bivalent Enhancer	Primary T helper memory cells from peripheral blood 1	blood
43	chr6:27584800-27586200	Flanking Active TSS	Foreskin Melanocyte Primary Cells skin03	Skin
44	chr6:27584800-27586200	Active TSS	Right Ventricle	heart
45	chr6:27584800-27586200	Active TSS	A549	lung
46	chr6:27584800-27586200	Flanking Active TSS	HUVEC	blood vessel
47	chr6:27584800-27586200	Active TSS	NHLF	lung
48	chr6:27585000-27585800	Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
49	chr6:27585000-27585800	Bivalent/Poised TSS	Fetal Kidney	kidney
50	chr6:27585000-27585800	Active TSS	Gastric	stomach

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links