Variant report

Variant	rs12290798
Chromosome Location	chr11:64120574-64120575
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:3)
CpG islands
(count:0)
Chromatin interactive
region (count:11)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

(count:3 , 50 per page) page: 1

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	HMGN3	chr11:64120487-64120656	K562	blood:	n/a	n/a
2	POLR2A	chr11:64120498-64121111	GM12878	blood:	n/a	n/a
3	POLR2A	chr11:64120553-64120875	GM12878	blood:	n/a	n/a

No data

(count:11 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr11:62607992..62610437-chr11:64119993..64122417,2	MCF-7	breast:
2	chr11:64084510..64086819-chr11:64119650..64121961,3	MCF-7	breast:
3	chr11:64108620..64111741-chr11:64119418..64122798,4	MCF-7	breast:
4	chr11:64082853..64088243-chr11:64119014..64129028,17	MCF-7	breast:
5	chr11:64119430..64124364-chr11:64124831..64128743,7	MCF-7	breast:
6	chr11:64071691..64076218-chr11:64119080..64123328,5	MCF-7	breast:
7	chr11:64069494..64072253-chr11:64119496..64122184,3	MCF-7	breast:
8	chr11:64066417..64068091-chr11:64119333..64120840,2	K562	blood:
9	chr11:64083348..64086402-chr11:64116093..64121800,6	K562	blood:
10	chr11:64052517..64054991-chr11:64119891..64124085,3	K562	blood:
11	chr11:64106209..64107766-chr11:64119904..64122675,2	MCF-7	breast:

No data

Variant related genes	Relation type
CCDC88B	TF binding region
ENSG00000162302	Chromatin interaction
ENSG00000173113	Chromatin interaction
ENSG00000173153	Chromatin interaction
ENSG00000126432	Chromatin interaction
ENSG00000219435	Chromatin interaction
ENSG00000168071	Chromatin interaction
ENSG00000133316	Chromatin interaction
ENSG00000173264	Chromatin interaction

Extended variants
information (count: 29 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:6)

rs_ID	r²[population]
rs12184422	1.00[CHD][hapmap]
rs2286610	1.00[LWK][hapmap]
rs34292685	1.00[LWK][hapmap]
rs35169799	1.00[CHD][hapmap]
rs652611	1.00[MEX][hapmap]
rs7111985	1.00[CHD][hapmap]

Variant overlapped rSNPs/rCNVs (count:23 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv897631	chr11:63664882-64129722	Flanking Active TSS Strong transcription Enhancers Weak transcription Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	254 gene(s)	inside rSNPs	diseases
2	esv1802079	chr11:63746066-64151373	Bivalent Enhancer Flanking Active TSS Weak transcription Enhancers Genic enhancers Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	247 gene(s)	inside rSNPs	diseases
3	nsv897646	chr11:63754986-64150370	Strong transcription Weak transcription Bivalent Enhancer Flanking Active TSS Enhancers Transcr. at gene 5' and 3' Active TSS Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	245 gene(s)	inside rSNPs	diseases
4	nsv1035875	chr11:63800238-64132030	Weak transcription Enhancers Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers Active TSS Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	234 gene(s)	inside rSNPs	diseases
5	nsv897660	chr11:63860826-64125142	Weak transcription Active TSS Enhancers Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	231 gene(s)	inside rSNPs	diseases
6	nsv897661	chr11:63863405-64129722	Flanking Active TSS Enhancers Weak transcription Active TSS Bivalent/Poised TSS Strong transcription Transcr. at gene 5' and 3' Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	233 gene(s)	inside rSNPs	diseases
7	nsv897662	chr11:63889749-64150370	Flanking Active TSS Enhancers Weak transcription Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Active TSS Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	237 gene(s)	inside rSNPs	diseases
8	nsv897664	chr11:63919742-64150370	Weak transcription Strong transcription Flanking Active TSS Enhancers Genic enhancers Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	237 gene(s)	inside rSNPs	diseases
9	nsv869944	chr11:63932152-64123062	Weak transcription Enhancers Strong transcription Flanking Active TSS Genic enhancers Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	227 gene(s)	inside rSNPs	diseases
10	nsv897671	chr11:63964657-64150370	Active TSS Flanking Active TSS Genic enhancers Weak transcription Enhancers Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	179 gene(s)	inside rSNPs	diseases
11	nsv832186	chr11:63972260-64170059	Active TSS Genic enhancers Weak transcription Flanking Active TSS Enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	180 gene(s)	inside rSNPs	diseases
12	esv1802320	chr11:63987425-64154633	Active TSS Enhancers Flanking Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Weak transcription Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	178 gene(s)	inside rSNPs	diseases
13	nsv897679	chr11:63994692-64150370	Enhancers Weak transcription Active TSS Bivalent/Poised TSS Flanking Active TSS Bivalent Enhancer Strong transcription Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	169 gene(s)	inside rSNPs	diseases
14	nsv897682	chr11:63999529-64170500	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS Genic enhancers Transcr. at gene 5' and 3' Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	164 gene(s)	inside rSNPs	diseases
15	nsv1043277	chr11:64002997-64132030	Bivalent/Poised TSS Enhancers Active TSS Flanking Active TSS Weak transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	157 gene(s)	inside rSNPs	diseases
16	nsv897685	chr11:64048912-64150370	Strong transcription Bivalent Enhancer Weak transcription Flanking Active TSS Enhancers Genic enhancers Transcr. at gene 5' and 3' Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	102 gene(s)	inside rSNPs	diseases
17	nsv818840	chr11:64097233-64125142	Weak transcription Flanking Active TSS Strong transcription Enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Active TSS Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	33 gene(s)	inside rSNPs	diseases
18	nsv818841	chr11:64097233-64129722	Active TSS Strong transcription Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	37 gene(s)	inside rSNPs	diseases
19	nsv555193	chr11:64107143-64120574	Flanking Active TSS Weak transcription Strong transcription Active TSS Flanking Bivalent TSS/Enh Enhancers Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region miRNA	22 gene(s)	inside rSNPs	diseases
20	nsv897688	chr11:64107735-64150370	Weak transcription Strong transcription Flanking Active TSS Enhancers Bivalent/Poised TSS Active TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	38 gene(s)	inside rSNPs	diseases
21	nsv897689	chr11:64109118-64148420	Flanking Active TSS Strong transcription Weak transcription Genic enhancers Active TSS Enhancers Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	38 gene(s)	inside rSNPs	diseases
22	nsv897690	chr11:64118422-64135298	Flanking Active TSS Weak transcription Enhancers Strong transcription Bivalent Enhancer Active TSS Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	28 gene(s)	inside rSNPs	diseases
23	nsv897691	chr11:64118422-64137875	Flanking Active TSS Weak transcription Strong transcription Enhancers Transcr. at gene 5' and 3' Active TSS Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	31 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:70 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:64110000-64122400	Weak transcription	Primary hematopoietic stem cells	blood
2	chr11:64110200-64125000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
3	chr11:64110200-64125200	Weak transcription	Primary T helper naive cells from peripheral blood	blood
4	chr11:64110800-64121400	Strong transcription	Primary T cells from cord blood	blood
5	chr11:64110800-64122400	Weak transcription	Brain Inferior Temporal Lobe	brain
6	chr11:64110800-64122400	Weak transcription	Lung	lung
7	chr11:64110800-64122800	Weak transcription	HUES48 Cell Line	embryonic stem cell
8	chr11:64110800-64123400	Strong transcription	Primary T helper 17 cells PMA-I stimulated	--
9	chr11:64111000-64121200	Weak transcription	Liver	Liver
10	chr11:64111000-64121800	Weak transcription	Right Ventricle	heart
11	chr11:64111000-64122400	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
12	chr11:64111000-64122400	Weak transcription	Colon Smooth Muscle	Colon
13	chr11:64111000-64122400	Weak transcription	Rectal Smooth Muscle	rectum
14	chr11:64111000-64122400	Weak transcription	Right Atrium	heart
15	chr11:64111000-64122600	Weak transcription	Brain Cingulate Gyrus	brain
16	chr11:64111000-64124200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
17	chr11:64111000-64125000	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
18	chr11:64111200-64121800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
19	chr11:64111200-64121800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
20	chr11:64111200-64122400	Weak transcription	Rectal Mucosa Donor 31	rectum
21	chr11:64111400-64122400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
22	chr11:64111400-64122600	Weak transcription	Gastric	stomach
23	chr11:64111800-64125000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
24	chr11:64112000-64125000	Weak transcription	Sigmoid Colon	Sigmoid Colon
25	chr11:64113800-64125000	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
26	chr11:64115000-64121600	Strong transcription	Primary monocytes fromperipheralblood	blood
27	chr11:64115000-64121600	Strong transcription	Monocytes-CD14+_RO01746	blood
28	chr11:64115000-64121800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
29	chr11:64115000-64121800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
30	chr11:64115000-64122400	Weak transcription	K562	blood
31	chr11:64115400-64125600	Weak transcription	GM12878-XiMat	blood
32	chr11:64115800-64125000	Strong transcription	Primary neutrophils fromperipheralblood	blood
33	chr11:64116000-64122000	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
34	chr11:64116200-64121800	Weak transcription	A549	lung
35	chr11:64116200-64122400	Weak transcription	Brain Substantia Nigra	brain
36	chr11:64116200-64122400	Weak transcription	Duodenum Mucosa	Duodenum
37	chr11:64116200-64122400	Weak transcription	Rectal Mucosa Donor 29	rectum
38	chr11:64116400-64121600	Strong transcription	Primary B cells from peripheral blood	blood
39	chr11:64116400-64122400	Weak transcription	Brain Hippocampus Middle	brain
40	chr11:64116600-64122600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
41	chr11:64116800-64120800	Strong transcription	Spleen	Spleen
42	chr11:64116800-64122400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
43	chr11:64116800-64122800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
44	chr11:64116800-64124400	Weak transcription	Placenta Amnion	Placenta Amnion
45	chr11:64117600-64121000	Weak transcription	Primary T helper cells PMA-I stimulated	--
46	chr11:64117600-64121600	Weak transcription	Hela-S3	cervix
47	chr11:64117600-64122400	Weak transcription	Colonic Mucosa	Colon
48	chr11:64118200-64122200	Genic enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
49	chr11:64118400-64123200	Enhancers	Fetal Muscle Leg	muscle
50	chr11:64118600-64121600	Strong transcription	Primary T helper naive cells fromperipheralblood	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links