Variant report

Variant	rs9468253
Chromosome Location	chr6:27871553-27871554
allele	C/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: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	chr6:27114577..27116314-chr6:27870225..27872245,2	K562	blood:
2	chr6:27869980..27872417-chr6:28062694..28065385,2	K562	blood:
3	chr6:27870372..27872373-chr6:27997352..27999344,2	K562	blood:
4	chr6:27870902..27873198-chr6:28100520..28102131,2	K562	blood:
5	chr6:27868676..27871582-chr6:27889227..27891930,6	K562	blood:
6	chr6:27870989..27872855-chr6:27917496..27919210,2	K562	blood:
7	chr6:27869786..27872331-chr6:28049938..28051848,2	K562	blood:
8	chr6:27869505..27871710-chr6:28702327..28704726,2	K562	blood:
9	chr6:27099506..27103105-chr6:27870143..27872034,3	K562	blood:
10	chr6:27870121..27872000-chr6:28676419..28679069,2	K562	blood:
11	chr6:27870682..27873346-chr6:28302621..28304824,2	MCF-7	breast:
12	chr6:27869790..27872813-chr6:27932103..27935630,3	K562	blood:

No data

Variant related genes	Relation type
ENSG00000235109	Chromatin interaction
ENSG00000196787	Chromatin interaction
ENSG00000124635	Chromatin interaction
ENSG00000197903	Chromatin interaction
ENSG00000184825	Chromatin interaction
ENSG00000214374	Chromatin interaction
ENSG00000265565	Chromatin interaction

Extended variants
information (count: 38 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:33)

rs_ID	r²[population]
rs10946952	1.00[AMR][1000 genomes]
rs11962485	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11962868	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11963732	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11966045	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11966528	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11966705	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11968670	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11970638	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28366687	1.00[AMR][1000 genomes]
rs57414310	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61072813	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6910942	0.89[AMR][1000 genomes]
rs6922530	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73384352	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73386613	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73386619	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73386634	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73386656	0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73386660	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73392695	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73392701	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73394721	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7748537	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7760283	0.85[AFR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9461421	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9461422	0.90[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9468257	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9468261	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9468262	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9468269	1.00[AMR][1000 genomes]
rs9468291	1.00[AMR][1000 genomes]
rs9468293	1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv432858	chr6:27719375-28011652	Flanking Active TSS Weak transcription Enhancers Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Strong transcription Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	387 gene(s)	inside rSNPs	diseases
2	nsv1022173	chr6:27734824-27959408	Enhancers Flanking Active TSS Active TSS Weak transcription Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	379 gene(s)	inside rSNPs	diseases
3	nsv883512	chr6:27748631-27969004	Enhancers Weak transcription Flanking Bivalent TSS/Enh Active TSS Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	379 gene(s)	inside rSNPs	diseases
4	nsv601208	chr6:27810626-27969004	Active TSS Bivalent/Poised TSS Flanking Active TSS Enhancers Flanking Bivalent TSS/Enh Genic enhancers Weak transcription Bivalent Enhancer Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	237 gene(s)	inside rSNPs	diseases
5	nsv1022651	chr6:27864217-28017997	Flanking Active TSS Enhancers Bivalent/Poised TSS Active TSS Weak transcription Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	50 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:96 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:27869600-27871600	Active TSS	H9 Cell Line	embryonic stem cell
2	chr6:27869600-27871600	Active TSS	Hela-S3	cervix
3	chr6:27870000-27871600	Active TSS	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
4	chr6:27870000-27871600	Active TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
5	chr6:27870000-27871600	Active TSS	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
6	chr6:27870000-27871600	Active TSS	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
7	chr6:27870000-27871600	Active TSS	IMR90 fetal lung fibroblasts Cell Line	lung
8	chr6:27870000-27871600	Active TSS	iPS DF 6.9 Cell Line	embryonic stem cell
9	chr6:27870000-27871600	Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
10	chr6:27870000-27871600	Active TSS	ES-UCSF4 Cell Line	embryonic stem cell
11	chr6:27870000-27871600	Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
12	chr6:27870000-27871600	Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
13	chr6:27870000-27871600	Active TSS	Primary T regulatory cells fromperipheralblood	blood
14	chr6:27870000-27871600	Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
15	chr6:27870000-27871600	Active TSS	Ganglion Eminence derived primary cultured neurospheres	brain
16	chr6:27870000-27871600	Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
17	chr6:27870000-27871600	Active TSS	Foreskin Fibroblast Primary Cells skin02	Skin
18	chr6:27870000-27871600	Active TSS	Foreskin Melanocyte Primary Cells skin03	Skin
19	chr6:27870000-27871600	Active TSS	Brain Germinal Matrix	brain
20	chr6:27870000-27871600	Active TSS	Brain Hippocampus Middle	brain
21	chr6:27870000-27871600	Active TSS	Brain Dorsolateral Prefrontal Cortex	brain
22	chr6:27870000-27871600	Active TSS	Duodenum Mucosa	Duodenum
23	chr6:27870000-27871600	Active TSS	Fetal Lung	lung
24	chr6:27870000-27871600	Active TSS	Fetal Stomach	stomach
25	chr6:27870000-27871600	Active TSS	Rectal Mucosa Donor 29	rectum
26	chr6:27870000-27871600	Active TSS	Rectal Smooth Muscle	rectum
27	chr6:27870000-27871600	Active TSS	Skeletal Muscle Female	skeletal muscle
28	chr6:27870000-27871600	Active TSS	NHLF	lung
29	chr6:27870000-27871800	Active TSS	ES-I3 Cell Line	embryonic stem cell
30	chr6:27870000-27871800	Active TSS	H1 Cell Line	embryonic stem cell
31	chr6:27870000-27871800	Active TSS	H9 Derived Neuron Cultured Cells	ES cell derived
32	chr6:27870000-27871800	Active TSS	HUES48 Cell Line	embryonic stem cell
33	chr6:27870000-27871800	Active TSS	HUES6 Cell Line	embryonic stem cell
34	chr6:27870000-27871800	Active TSS	HUES64 Cell Line	embryonic stem cell
35	chr6:27870000-27871800	Active TSS	iPS-20b Cell Line	embryonic stem cell
36	chr6:27870000-27871800	Active TSS	Foreskin Keratinocyte Primary Cells skin03	Skin
37	chr6:27870000-27871800	Active TSS	Fetal Brain Male	brain
38	chr6:27870000-27871800	Active TSS	Fetal Brain Female	brain
39	chr6:27870000-27871800	Active TSS	Fetal Intestine Large	intestine
40	chr6:27870000-27871800	Active TSS	A549	lung
41	chr6:27870200-27871600	Active TSS	iPS-15b Cell Line	embryonic stem cell
42	chr6:27870200-27871600	Active TSS	Primary T killer naive cells fromperipheralblood	blood
43	chr6:27870200-27871600	Active TSS	Foreskin Melanocyte Primary Cells skin01	Skin
44	chr6:27870200-27871600	Active TSS	Brain Cingulate Gyrus	brain
45	chr6:27870200-27871600	Active TSS	Fetal Intestine Small	intestine
46	chr6:27870200-27871600	Active TSS	Placenta	Placenta
47	chr6:27870200-27871600	Active TSS	Right Atrium	heart
48	chr6:27870200-27871600	Active TSS	HMEC	breast
49	chr6:27870200-27871600	Active TSS	NH-A	brain
50	chr6:27870200-27871600	Active TSS	NHDF-Ad	bronchial

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links