Variant report

Variant	rs11589765
Chromosome Location	chr1:181008007-181008008
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:22)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:22 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr1:181006288..181011234-chr1:181054894..181059610,7	MCF-7	breast:
2	chr1:181007913..181009415-chr1:181111090..181113028,2	MCF-7	breast:
3	chr1:180850812..180851717-chr1:181007258..181008144,2	K562	blood:
4	chr1:181001303..181005236-chr1:181006998..181010264,4	MCF-7	breast:
5	chr1:181006298..181009433-chr1:181068869..181071626,3	MCF-7	breast:
6	chr1:180997971..181011022-chr1:181054648..181063248,33	K562	blood:
7	chr1:180990645..180992975-chr1:181006730..181008328,2	MCF-7	breast:
8	chr1:181007342..181008687-chr1:181111010..181112254,5	MCF-7	breast:
9	chr1:181003253..181008679-chr1:181011469..181014538,5	MCF-7	breast:
10	chr1:180999745..181016101-chr1:181055432..181063450,33	K562	blood:
11	chr1:181006689..181009115-chr1:181111190..181112920,2	MCF-7	breast:
12	chr1:181004788..181008643-chr1:181010792..181015908,7	K562	blood:
13	chr1:181007037..181009950-chr1:181135350..181137571,2	MCF-7	breast:
14	chr1:181007389..181008113-chr1:181135603..181136462,2	MCF-7	breast:
15	chr1:181007303..181008144-chr1:181110098..181110996,2	K562	blood:
16	chr1:181007125..181008256-chr1:181111354..181112249,8	MCF-7	breast:
17	chr1:181007160..181008400-chr1:181111211..181112273,9	K562	blood:
18	chr1:181007287..181008207-chr1:181121891..181122854,2	K562	blood:
19	chr1:181006912..181008596-chr1:181114437..181116744,2	MCF-7	breast:
20	chr1:181003285..181010147-chr1:181055895..181060690,15	MCF-7	breast:
21	chr1:181007689..181008196-chr1:181135015..181135903,2	K562	blood:
22	chr1:181007094..181009350-chr1:181012392..181014502,3	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000162783	Chromatin interaction
ENSG00000135823	Chromatin interaction
ENSG00000153029	Chromatin interaction
ENSG00000272198	Chromatin interaction

Extended variants
information (count: 14 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:10)

rs_ID	r²[population]
rs10910849	0.80[AMR][1000 genomes]
rs12073184	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12565758	0.82[AMR][1000 genomes]
rs12727543	0.82[AMR][1000 genomes];0.90[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2331992	0.80[AMR][1000 genomes]
rs4652549	0.80[AMR][1000 genomes]
rs61809217	0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6425661	0.86[AFR][1000 genomes];0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6678384	0.82[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6692913	0.86[AFR][1000 genomes];0.93[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[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	nsv1014404	chr1:180770155-181090200	Weak transcription Active TSS Enhancers Genic enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	97 gene(s)	inside rSNPs	diseases
2	esv3342865	chr1:180933678-181018012	Flanking Active TSS Strong transcription Weak transcription Enhancers Active TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases
3	esv3383831	chr1:180937224-181029755	Strong transcription Active TSS Weak transcription Genic enhancers Flanking Active TSS Enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases
4	nsv1011081	chr1:180973159-181135953	Weak transcription Strong transcription Flanking Active TSS Enhancers Active TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	95 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:82 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:181002600-181012200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
2	chr1:181003800-181009600	Weak transcription	Fetal Intestine Small	intestine
3	chr1:181003800-181012200	Weak transcription	Placenta	Placenta
4	chr1:181004000-181008400	Weak transcription	Hela-S3	cervix
5	chr1:181004000-181008600	Enhancers	Primary T killer naive cells fromperipheralblood	blood
6	chr1:181004000-181009400	Weak transcription	Stomach Mucosa	stomach
7	chr1:181004000-181009600	Weak transcription	A549	lung
8	chr1:181004000-181010000	Weak transcription	NHDF-Ad	bronchial
9	chr1:181004000-181010200	Weak transcription	Osteobl	bone
10	chr1:181004000-181010400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
11	chr1:181004000-181010400	Weak transcription	Brain Hippocampus Middle	brain
12	chr1:181004000-181010600	Weak transcription	HMEC	breast
13	chr1:181004000-181012000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
14	chr1:181004000-181012000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
15	chr1:181004000-181013600	Weak transcription	Psoas Muscle	Psoas
16	chr1:181004000-181015600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
17	chr1:181004000-181025400	Weak transcription	Fetal Stomach	stomach
18	chr1:181004000-181025800	Weak transcription	Fetal Muscle Leg	muscle
19	chr1:181004000-181026200	Weak transcription	Brain Anterior Caudate	brain
20	chr1:181004200-181008200	Weak transcription	NHLF	lung
21	chr1:181004200-181010200	Weak transcription	Muscle Satellite Cultured Cells	--
22	chr1:181004200-181010600	Weak transcription	NHEK	skin
23	chr1:181004200-181012200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
24	chr1:181005000-181011800	Weak transcription	Primary hematopoietic stem cells	blood
25	chr1:181005200-181011800	Weak transcription	Rectal Mucosa Donor 31	rectum
26	chr1:181005200-181012200	Weak transcription	Lung	lung
27	chr1:181005400-181009400	Weak transcription	Liver	Liver
28	chr1:181005400-181012000	Weak transcription	Adipose Nuclei	Adipose
29	chr1:181005400-181012200	Weak transcription	Colonic Mucosa	Colon
30	chr1:181005600-181009600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
31	chr1:181005600-181010400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
32	chr1:181005600-181010400	Weak transcription	Duodenum Smooth Muscle	Duodenum
33	chr1:181005600-181010400	Weak transcription	Stomach Smooth Muscle	stomach
34	chr1:181005600-181012200	Weak transcription	Rectal Mucosa Donor 29	rectum
35	chr1:181005600-181013800	Weak transcription	Pancreas	Pancrea
36	chr1:181005600-181025800	Weak transcription	Right Ventricle	heart
37	chr1:181005600-181026000	Weak transcription	Rectal Smooth Muscle	rectum
38	chr1:181005600-181026400	Weak transcription	Colon Smooth Muscle	Colon
39	chr1:181005600-181028200	Weak transcription	Gastric	stomach
40	chr1:181005600-181028600	Weak transcription	Ovary	ovary
41	chr1:181005800-181008600	Enhancers	Primary T killer memory cells from peripheral blood	blood
42	chr1:181005800-181010600	Weak transcription	Spleen	Spleen
43	chr1:181005800-181010800	Weak transcription	Aorta	Aorta
44	chr1:181005800-181012000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
45	chr1:181005800-181012200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
46	chr1:181005800-181012200	Weak transcription	Esophagus	oesophagus
47	chr1:181005800-181012200	Weak transcription	Sigmoid Colon	Sigmoid Colon
48	chr1:181006000-181008600	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
49	chr1:181006000-181010600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
50	chr1:181006000-181012200	Weak transcription	Thymus	Thymus

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links