Variant report

Variant	rs11855827
Chromosome Location	chr15:77228994-77228995
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	TCF7L2	chr15:77228901-77229527	HepG2	liver:	n/a	n/a
2	FOXA1	chr15:77228956-77229368	HepG2	liver:	n/a	n/a
3	EP300	chr15:77228929-77229405	HepG2	liver:	n/a	n/a
4	MYC	chr15:77228907-77228995	MCF-7	breast:	n/a	n/a
5	FOXA2	chr15:77228966-77229338	HepG2	liver:	n/a	n/a
6	CEBPB	chr15:77228905-77229412	HepG2	liver:	n/a	chr15:77229204-77229215
7	ARID3A	chr15:77228923-77229328	HepG2	liver:	n/a	n/a
8	POLR2A	chr15:77228831-77229029	H1-hESC	embryonic stem cell:	n/a	n/a
9	TEAD4	chr15:77228835-77229421	HepG2	liver:	n/a	n/a

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr15:77203522..77205443-chr15:77227601..77230427,2	MCF-7	breast:
2	chr15:77222820..77226141-chr15:77227391..77230056,4	K562	blood:

Variant related genes	Relation type
RCN2	TF binding region
ENSG00000117906	Chromatin interaction

Extended variants
information (count: 33 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:28)

rs_ID	r²[population]
rs11852605	1.00[YRI][hapmap];1.00[AMR][1000 genomes]
rs11852935	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11854018	1.00[YRI][hapmap];1.00[AMR][1000 genomes]
rs11854604	1.00[AMR][1000 genomes]
rs11855062	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11855359	1.00[AMR][1000 genomes]
rs11855501	1.00[YRI][hapmap];1.00[AMR][1000 genomes]
rs11856288	1.00[YRI][hapmap];1.00[AMR][1000 genomes]
rs11857316	1.00[AMR][1000 genomes]
rs11857437	1.00[AMR][1000 genomes]
rs11857794	1.00[AMR][1000 genomes]
rs11857800	1.00[AMR][1000 genomes]
rs11858343	0.86[AFR][1000 genomes]
rs11858497	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs35402111	1.00[AMR][1000 genomes]
rs6495215	1.00[AMR][1000 genomes]
rs7164979	1.00[YRI][hapmap];1.00[AMR][1000 genomes]
rs7166387	1.00[AMR][1000 genomes]
rs7169613	1.00[AMR][1000 genomes]
rs7170490	1.00[YRI][hapmap];0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7171670	1.00[YRI][hapmap];1.00[AMR][1000 genomes]
rs7171966	1.00[AMR][1000 genomes]
rs7182749	1.00[AMR][1000 genomes]
rs73457178	1.00[AMR][1000 genomes]
rs8028181	1.00[AMR][1000 genomes]
rs8032135	1.00[AMR][1000 genomes]
rs8037292	1.00[AMR][1000 genomes]
rs8038115	1.00[LWK][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];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	esv3440794	chr15:76764595-77571114	Weak transcription Enhancers Strong transcription Active TSS Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer 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	25 gene(s)	inside rSNPs	diseases
2	esv3367577	chr15:77015618-77442634	Genic enhancers Weak transcription Strong transcription Enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Flanking Active TSS Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	20 gene(s)	inside rSNPs	diseases
3	nsv1040852	chr15:77160237-78137541	Enhancers Flanking Active TSS Active TSS Strong transcription Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	42 gene(s)	inside rSNPs	diseases
4	esv2758388	chr15:77170550-77373448	Weak transcription Enhancers Flanking Active TSS Genic enhancers Strong transcription Bivalent Enhancer Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
5	esv2760041	chr15:77170550-77373448	Enhancers Genic enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:125 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:77224800-77231000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr15:77224800-77243000	Weak transcription	Lung	lung
3	chr15:77224800-77256000	Weak transcription	Pancreas	Pancrea
4	chr15:77225000-77240400	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
5	chr15:77225000-77240400	Weak transcription	Spleen	Spleen
6	chr15:77225000-77241000	Weak transcription	Colonic Mucosa	Colon
7	chr15:77225000-77242800	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
8	chr15:77225000-77243000	Weak transcription	Primary neutrophils fromperipheralblood	blood
9	chr15:77225000-77245200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
10	chr15:77225000-77245200	Weak transcription	Esophagus	oesophagus
11	chr15:77225000-77247000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
12	chr15:77225000-77254600	Weak transcription	Aorta	Aorta
13	chr15:77225000-77260200	Weak transcription	Right Ventricle	heart
14	chr15:77225200-77245200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
15	chr15:77225200-77246400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
16	chr15:77225400-77231400	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
17	chr15:77225400-77232400	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
18	chr15:77225400-77238000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
19	chr15:77225400-77238800	Weak transcription	Stomach Mucosa	stomach
20	chr15:77225400-77255400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
21	chr15:77225600-77229400	Strong transcription	Fetal Muscle Leg	muscle
22	chr15:77225600-77229600	Strong transcription	NHDF-Ad	bronchial
23	chr15:77225600-77231400	Strong transcription	HSMM	muscle
24	chr15:77225600-77231400	Strong transcription	NH-A	brain
25	chr15:77225600-77232800	Strong transcription	HUES48 Cell Line	embryonic stem cell
26	chr15:77225600-77243600	Weak transcription	Primary T killer memory cells from peripheral blood	blood
27	chr15:77225800-77231200	Strong transcription	Osteobl	bone
28	chr15:77225800-77231800	Strong transcription	HUES6 Cell Line	embryonic stem cell
29	chr15:77225800-77232000	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
30	chr15:77225800-77232800	Strong transcription	Placenta	Placenta
31	chr15:77225800-77243800	Strong transcription	iPS-20b Cell Line	embryonic stem cell
32	chr15:77225800-77244600	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
33	chr15:77225800-77245000	Weak transcription	Fetal Heart	heart
34	chr15:77226000-77229200	Strong transcription	Primary monocytes fromperipheralblood	blood
35	chr15:77226000-77229600	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
36	chr15:77226000-77229600	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
37	chr15:77226000-77229800	Strong transcription	Liver	Liver
38	chr15:77226000-77230000	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
39	chr15:77226000-77230000	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
40	chr15:77226000-77231600	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
41	chr15:77226000-77231600	Strong transcription	Fetal Intestine Large	intestine
42	chr15:77226000-77231600	Strong transcription	Fetal Thymus	thymus
43	chr15:77226000-77232000	Strong transcription	Primary hematopoietic stem cells short term culture	blood
44	chr15:77226000-77237000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
45	chr15:77226200-77230200	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
46	chr15:77226200-77230200	Strong transcription	Fetal Muscle Trunk	muscle
47	chr15:77226200-77231400	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
48	chr15:77226200-77231600	Strong transcription	iPS-18 Cell Line	embryonic stem cell
49	chr15:77226200-77247200	Weak transcription	Fetal Brain Male	brain
50	chr15:77226400-77232000	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links