Variant report

Variant	rs12295841
Chromosome Location	chr11:74175652-74175653
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:2)
CpG islands
(count:0)
Chromatin interactive
region (count:5)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

(count:2 , 50 per page) page: 1

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	POLR2A	chr11:74172545-74179851	SK-N-MC	brain:	n/a	n/a
2	SPI1	chr11:74175600-74176185	HL-60	blood:	n/a	n/a

No data

(count:5 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr11:74175244..74178880-chr11:74203216..74205739,4	MCF-7	breast:
2	chr11:74175411..74179003-chr11:74201966..74206100,6	MCF-7	breast:
3	chr11:74175366..74177621-chr11:74184353..74186919,2	MCF-7	breast:
4	chr11:74175333..74177141-chr11:74189553..74191217,2	K562	blood:
5	chr11:74171659..74173234-chr11:74174907..74176791,2	MCF-7	breast:

No data

Variant related genes	Relation type
KCNE3	TF binding region
ENSG00000254837	Chromatin interaction
ENSG00000077514	Chromatin interaction
ENSG00000175536	Chromatin interaction

Extended variants
information (count: 21 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:11)

rs_ID	r²[population]
rs11236118	1.00[YRI][hapmap];0.92[AFR][1000 genomes]
rs12270975	1.00[AFR][1000 genomes]
rs12271302	1.00[YRI][hapmap];0.92[AFR][1000 genomes]
rs12273068	1.00[YRI][hapmap];0.88[AFR][1000 genomes]
rs12285733	1.00[YRI][hapmap];0.88[AFR][1000 genomes]
rs12291914	0.92[AFR][1000 genomes]
rs12292862	0.91[YRI][hapmap]
rs12293015	0.91[YRI][hapmap]
rs4944893	0.83[YRI][hapmap]
rs58116543	0.92[AFR][1000 genomes]
rs60716017	1.00[AFR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:10 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2757451	chr11:73842609-74545888	Weak transcription Flanking Bivalent TSS/Enh Flanking Active TSS Strong transcription Enhancers Genic enhancers Bivalent Enhancer Active TSS Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	87 gene(s)	inside rSNPs	diseases
2	esv2759837	chr11:73842609-74557597	Flanking Active TSS Enhancers Bivalent/Poised TSS Weak transcription Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Active TSS Strong transcription Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	88 gene(s)	inside rSNPs	diseases
3	esv34979	chr11:73878688-74533452	Enhancers Weak transcription Active TSS ZNF genes & repeats Strong transcription Flanking Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	85 gene(s)	inside rSNPs	diseases
4	esv2758277	chr11:73887567-74557597	Weak transcription Enhancers Strong transcription Active TSS ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	85 gene(s)	inside rSNPs	diseases
5	nsv825994	chr11:73936667-74534455	Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer Strong transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	83 gene(s)	inside rSNPs	diseases
6	nsv555443	chr11:74109166-74180489	Enhancers Bivalent/Poised TSS Active TSS Weak transcription Strong transcription Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA	17 gene(s)	inside rSNPs	diseases
7	nsv1041154	chr11:74114801-74177909	Flanking Active TSS Weak transcription Enhancers Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
8	nsv393	chr11:74135862-74181417	Enhancers Strong transcription Weak transcription Active TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
9	nsv832209	chr11:74155883-74329119	Enhancers Weak transcription Strong transcription Active TSS Flanking Active TSS Genic enhancers 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	30 gene(s)	inside rSNPs	diseases
10	nsv897913	chr11:74171997-74216705	Enhancers Weak transcription Flanking Active TSS Genic enhancers Bivalent/Poised TSS Active TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	24 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:47 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:74160400-74177800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
2	chr11:74168600-74177600	Weak transcription	Small Intestine	intestine
3	chr11:74171800-74177000	Weak transcription	Fetal Kidney	kidney
4	chr11:74172000-74177200	Weak transcription	Rectal Smooth Muscle	rectum
5	chr11:74172200-74177400	Weak transcription	Skeletal Muscle Male	skeletal muscle
6	chr11:74172400-74177800	Weak transcription	Sigmoid Colon	Sigmoid Colon
7	chr11:74172800-74176600	Enhancers	Stomach Mucosa	stomach
8	chr11:74173200-74176000	Genic enhancers	Fetal Intestine Small	intestine
9	chr11:74173200-74176600	Weak transcription	Brain Hippocampus Middle	brain
10	chr11:74173200-74178000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
11	chr11:74173400-74176400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
12	chr11:74173400-74176600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
13	chr11:74173400-74177000	Weak transcription	Colonic Mucosa	Colon
14	chr11:74173400-74177800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
15	chr11:74173600-74175800	Enhancers	Primary hematopoietic stem cells short term culture	blood
16	chr11:74173600-74176600	Weak transcription	HUES6 Cell Line	embryonic stem cell
17	chr11:74173600-74177800	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
18	chr11:74173600-74177800	Weak transcription	Right Atrium	heart
19	chr11:74173800-74176600	Weak transcription	Skeletal Muscle Female	skeletal muscle
20	chr11:74173800-74177800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
21	chr11:74173800-74177800	Weak transcription	Brain Anterior Caudate	brain
22	chr11:74173800-74177800	Weak transcription	Brain Substantia Nigra	brain
23	chr11:74174000-74176000	Weak transcription	K562	blood
24	chr11:74174000-74176600	Weak transcription	Adipose Nuclei	Adipose
25	chr11:74174000-74176800	Weak transcription	Fetal Lung	lung
26	chr11:74174000-74177600	Weak transcription	Ovary	ovary
27	chr11:74174000-74177800	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
28	chr11:74174000-74177800	Weak transcription	Placenta	Placenta
29	chr11:74174200-74177600	Weak transcription	Liver	Liver
30	chr11:74174200-74177800	Enhancers	Primary monocytes fromperipheralblood	blood
31	chr11:74174200-74177800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
32	chr11:74174200-74177800	Weak transcription	Spleen	Spleen
33	chr11:74174400-74176200	Transcr. at gene 5' and 3'	Duodenum Mucosa	Duodenum
34	chr11:74174400-74177600	Enhancers	Primary neutrophils fromperipheralblood	blood
35	chr11:74174600-74176000	Weak transcription	Pancreas	Pancrea
36	chr11:74175000-74176400	Weak transcription	Lung	lung
37	chr11:74175000-74176600	Enhancers	Monocytes-CD14+_RO01746	blood
38	chr11:74175000-74177800	Weak transcription	Primary hematopoietic stem cells	blood
39	chr11:74175000-74179600	Enhancers	HepG2	liver
40	chr11:74175200-74176400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
41	chr11:74175200-74177400	Weak transcription	Esophagus	oesophagus
42	chr11:74175400-74177200	Enhancers	Fetal Intestine Large	intestine
43	chr11:74175600-74175800	Flanking Active TSS	Rectal Mucosa Donor 31	rectum
44	chr11:74175600-74176200	Enhancers	Rectal Mucosa Donor 29	rectum
45	chr11:74175600-74176400	Weak transcription	Fetal Stomach	stomach
46	chr11:74175600-74176600	Weak transcription	Duodenum Smooth Muscle	Duodenum
47	chr11:74175600-74177000	Enhancers	Gastric	stomach

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links