Variant report

Variant	rs11155318
Chromosome Location	chr6:143998761-143998762
allele	C/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	MYC	chr6:143998730-143999984	K562	blood:	n/a	n/a
2	CHD1	chr6:143998610-143998859	H1-hESC	embryonic stem cell:	n/a	n/a
3	EP300	chr6:143998683-143999906	ECC-1	luminal epithelium:	n/a	chr6:143999674-143999688 chr6:143998850-143998859
4	TCF12	chr6:143998752-143999737	ECC-1	luminal epithelium:	n/a	n/a
5	ZBTB7A	chr6:143998669-143999373	ECC-1	luminal epithelium:	n/a	n/a
6	MAZ	chr6:143998716-143999409	HepG2	liver:	n/a	n/a
7	NR2F2	chr6:143998745-143999802	HepG2	liver:	n/a	chr6:143999158-143999173
8	ZBTB7A	chr6:143998751-143999297	ECC-1	luminal epithelium:	n/a	n/a
9	HDAC2	chr6:143998757-143999582	HepG2	liver:	n/a	chr6:143998848-143998862 chr6:143998786-143998800
10	TBL1XR1	chr6:143998674-143998880	K562	blood:	n/a	n/a

No.	Distal block	Cell Line	Cell type
1	chr6:143998295..144000747-chr6:144385501..144387723,2	K562	blood:
2	chr13:31735734..31736331-chr6:143998704..143999282,2	HCT-116	colon:
3	chr6:143997590..144001098-chr6:144164062..144165676,3	K562	blood:

Variant related genes	Relation type
PHACTR2	TF binding region
ENSG00000120694	Chromatin interaction
ENSG00000135521	Chromatin interaction
ENSG00000118495	Chromatin interaction

Extended variants
information (count: 58 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:54)

rs_ID	r²[population]
rs11155320	0.89[AMR][1000 genomes];0.92[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs11962519	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs12530310	0.87[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs13190772	0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs13191259	0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs13204954	0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs13220613	0.92[EUR][1000 genomes]
rs2024693	0.80[EUR][1000 genomes]
rs2051008	0.88[ASN][1000 genomes]
rs2092762	0.81[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2474150	0.88[ASN][1000 genomes]
rs3924968	0.85[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4299843	0.86[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs4523103	0.97[EUR][1000 genomes]
rs6570571	0.87[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6570572	0.83[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6570573	0.83[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6913687	0.82[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6914940	0.94[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs6916245	0.94[AMR][1000 genomes];0.88[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6931556	0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7450663	0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7738179	0.85[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7740883	0.83[ASN][1000 genomes]
rs7741628	0.83[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7741901	0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7741998	0.87[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs7747182	0.87[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7758298	0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7760178	0.85[AMR][1000 genomes];0.85[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7762598	0.84[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7764549	0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7766091	0.93[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7770812	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7772898	0.82[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs910419	0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9321933	0.84[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9321934	0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9376773	0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9376774	0.85[EUR][1000 genomes]
rs9376775	0.85[EUR][1000 genomes]
rs9376777	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9390127	0.83[AMR][1000 genomes];0.86[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9399454	0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9399456	0.84[AMR][1000 genomes];0.87[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9399459	0.80[EUR][1000 genomes]
rs9403520	0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9403522	0.99[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9484794	0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9496718	0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9496721	0.84[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9496729	0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9496734	0.86[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9496735	0.80[AMR][1000 genomes];0.85[EUR][1000 genomes];0.95[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2758084	chr6:143916621-144079976	Weak transcription Enhancers Genic enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
2	esv2759476	chr6:143916621-144079976	Enhancers Weak transcription Flanking Bivalent TSS/Enh Strong transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
3	nsv1032369	chr6:143925374-144007513	Weak transcription Flanking Active TSS ZNF genes & repeats Enhancers Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
4	nsv604805	chr6:143930404-144005949	Weak transcription Bivalent/Poised TSS Active TSS Enhancers Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:98 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:143994000-143998800	Enhancers	Hela-S3	cervix
2	chr6:143994200-143999000	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
3	chr6:143994600-143999000	Weak transcription	Lung	lung
4	chr6:143994800-143999000	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
5	chr6:143995000-143998800	Weak transcription	Sigmoid Colon	Sigmoid Colon
6	chr6:143995400-143998800	Flanking Active TSS	iPS-20b Cell Line	embryonic stem cell
7	chr6:143995800-143998800	Weak transcription	HSMM	muscle
8	chr6:143995800-143998800	Weak transcription	K562	blood
9	chr6:143996000-143998800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
10	chr6:143996200-143998800	Weak transcription	Primary neutrophils fromperipheralblood	blood
11	chr6:143996200-143998800	Weak transcription	Ovary	ovary
12	chr6:143996200-143999000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
13	chr6:143996200-143999000	Weak transcription	Esophagus	oesophagus
14	chr6:143996200-143999000	Weak transcription	Pancreas	Pancrea
15	chr6:143996200-143999000	Weak transcription	Small Intestine	intestine
16	chr6:143996400-143998800	Weak transcription	Liver	Liver
17	chr6:143996600-143999000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
18	chr6:143996600-143999000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
19	chr6:143996800-143998800	Flanking Active TSS	HUES64 Cell Line	embryonic stem cell
20	chr6:143996800-143999000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
21	chr6:143996800-143999000	Weak transcription	Gastric	stomach
22	chr6:143997200-143999000	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
23	chr6:143997400-143998800	Weak transcription	H9 Cell Line	embryonic stem cell
24	chr6:143997400-143999000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
25	chr6:143997600-143999200	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
26	chr6:143997600-143999200	Weak transcription	Stomach Mucosa	stomach
27	chr6:143997600-144000400	Active TSS	A549	lung
28	chr6:143997600-144001800	Active TSS	Aorta	Aorta
29	chr6:143997800-143999000	Weak transcription	Placenta Amnion	Placenta Amnion
30	chr6:143998000-143998800	Flanking Active TSS	HUES48 Cell Line	embryonic stem cell
31	chr6:143998200-143998800	Weak transcription	HMEC	breast
32	chr6:143998200-143999000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
33	chr6:143998200-144002800	Active TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
34	chr6:143998400-143998800	Flanking Active TSS	iPS-15b Cell Line	embryonic stem cell
35	chr6:143998400-143998800	Flanking Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
36	chr6:143998400-143998800	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
37	chr6:143998400-143998800	Flanking Active TSS	NHEK	skin
38	chr6:143998400-144001600	Active TSS	Fetal Muscle Trunk	muscle
39	chr6:143998400-144001800	Active TSS	Fetal Muscle Leg	muscle
40	chr6:143998600-143998800	Flanking Active TSS	HUES6 Cell Line	embryonic stem cell
41	chr6:143998600-143998800	Enhancers	Primary monocytes fromperipheralblood	blood
42	chr6:143998600-143998800	Bivalent/Poised TSS	Primary B cells from cord blood	blood
43	chr6:143998600-143998800	Active TSS	Primary T cells fromperipheralblood	blood
44	chr6:143998600-143998800	Flanking Active TSS	Primary T helper cells fromperipheralblood	blood
45	chr6:143998600-143998800	Flanking Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
46	chr6:143998600-143998800	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Female	--
47	chr6:143998600-143998800	Flanking Active TSS	Muscle Satellite Cultured Cells	--
48	chr6:143998600-143998800	Flanking Active TSS	Foreskin Keratinocyte Primary Cells skin02	Skin
49	chr6:143998600-143998800	Flanking Active TSS	Adipose Nuclei	Adipose
50	chr6:143998600-143998800	Enhancers	Duodenum Mucosa	Duodenum

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links