Variant report

Variant	rs9461396
Chromosome Location	chr6:27646829-27646830
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:27632657..27637879-chr6:27644957..27648332,5	K562	blood:
2	chr6:27634605..27637879-chr6:27644998..27648332,4	K562	blood:
3	chr6:26157578..26160001-chr6:27646646..27649152,2	MCF-7	breast:
4	chr6:27638628..27643322-chr6:27645901..27648389,5	K562	blood:
5	chr6:27644939..27650269-chr6:27651814..27657274,7	K562	blood:
6	chr6:27646424..27648439-chr6:27863200..27865949,2	K562	blood:

Variant related genes	Relation type
ENSG00000158373	Chromatin interaction
ENSG00000238610	Chromatin interaction

Extended variants
information (count: 43 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:34)

rs_ID	r²[population]
rs12111051	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16867858	1.00[EUR][1000 genomes]
rs16867899	1.00[EUR][1000 genomes]
rs16867901	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs169263	1.00[EUR][1000 genomes]
rs200970	1.00[EUR][1000 genomes]
rs2200870	1.00[EUR][1000 genomes]
rs55768730	1.00[EUR][1000 genomes]
rs55965630	1.00[EUR][1000 genomes]
rs55987929	1.00[EUR][1000 genomes]
rs56221999	1.00[EUR][1000 genomes]
rs56262840	1.00[EUR][1000 genomes]
rs56366090	1.00[EUR][1000 genomes]
rs58359716	1.00[EUR][1000 genomes]
rs58700542	1.00[EUR][1000 genomes]
rs60883433	0.91[AMR][1000 genomes]
rs6456800	1.00[EUR][1000 genomes]
rs6904979	1.00[EUR][1000 genomes]
rs73739117	1.00[EUR][1000 genomes]
rs73739122	1.00[EUR][1000 genomes]
rs73739150	1.00[EUR][1000 genomes]
rs73739606	1.00[EUR][1000 genomes]
rs73739685	1.00[EUR][1000 genomes]
rs73739750	1.00[EUR][1000 genomes]
rs73740805	1.00[EUR][1000 genomes]
rs73740842	1.00[EUR][1000 genomes]
rs73742455	1.00[EUR][1000 genomes]
rs9295739	0.88[AFR][1000 genomes];0.80[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9468189	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9468190	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9468197	1.00[AMR][1000 genomes]
rs9468198	1.00[AMR][1000 genomes]
rs9468202	1.00[AMR][1000 genomes]
rs9468205	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	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	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
3	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
4	nsv830618	chr6:27593274-27789605	Active TSS Enhancers Weak transcription Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Strong transcription Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	143 gene(s)	inside rSNPs	diseases
5	nsv1031337	chr6:27596676-27734884	Flanking Active TSS Strong transcription Enhancers Bivalent Enhancer Active TSS Weak transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	36 gene(s)	inside rSNPs	diseases
6	nsv525669	chr6:27623511-27657647	Bivalent Enhancer Enhancers Bivalent/Poised TSS Weak transcription Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	21 gene(s)	inside rSNPs	diseases
7	nsv883511	chr6:27623511-27660508	Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Enhancers Bivalent Enhancer Weak transcription Flanking Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	22 gene(s)	inside rSNPs	diseases
8	esv2830157	chr6:27634640-27657647	Bivalent Enhancer Flanking Bivalent TSS/Enh Enhancers Bivalent/Poised TSS Active TSS Flanking Active TSS Weak transcription ZNF genes & repeats Transcr. at gene 5' and 3'	Chromatin interactive region lncRNA	20 gene(s)	inside rSNPs	diseases
9	nsv518945	chr6:27634640-27668013	Weak transcription Bivalent/Poised TSS Bivalent Enhancer Active TSS Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3'	Chromatin interactive region lncRNA	28 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:14 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:27640800-27647400	Weak transcription	GM12878-XiMat	blood
2	chr6:27645600-27647000	Enhancers	Rectal Mucosa Donor 31	rectum
3	chr6:27646000-27649000	Weak transcription	A549	lung
4	chr6:27646400-27647000	Bivalent Enhancer	Fetal Intestine Small	intestine
5	chr6:27646600-27647000	Bivalent Enhancer	Fetal Intestine Large	intestine
6	chr6:27646600-27647200	Bivalent Enhancer	Primary hematopoietic stem cells G-CSF-mobilized Female	--
7	chr6:27646600-27647600	Bivalent Enhancer	Primary hematopoietic stem cells	blood
8	chr6:27646600-27648600	Weak transcription	HepG2	liver
9	chr6:27646800-27647200	Bivalent/Poised TSS	Foreskin Keratinocyte Primary Cells skin03	Skin
10	chr6:27646800-27647400	Bivalent Enhancer	Primary hematopoietic stem cells short term culture	blood
11	chr6:27646800-27647400	Bivalent Enhancer	Primary hematopoietic stem cells G-CSF-mobilized Male	--
12	chr6:27646800-27649200	Bivalent/Poised TSS	H1 Cell Line	embryonic stem cell
13	chr6:27646800-27649800	Bivalent/Poised TSS	HUES6 Cell Line	embryonic stem cell
14	chr6:27646800-27649800	Bivalent/Poised TSS	HUES64 Cell Line	embryonic stem cell

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