Variant report

Variant	rs13387655
Chromosome Location	chr2:86860042-86860043
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr2:86858001..86860361-chr2:86914805..86916543,2	MCF-7	breast:
2	chr2:86855492..86857596-chr2:86858665..86860258,2	MCF-7	breast:
3	chr2:86667556..86669335-chr2:86857955..86860721,2	MCF-7	breast:
4	chr2:86858947..86862298-chr2:86867270..86869681,3	MCF-7	breast:
5	chr2:86859149..86861871-chr2:86863895..86866961,3	MCF-7	breast:
6	chr2:86859015..86860770-chr2:86917771..86920536,2	MCF-7	breast:
7	chr2:86857369..86860425-chr2:86900280..86904256,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000115548	Chromatin interaction

Extended variants
information (count: 5 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:2)

rs_ID	r²[population]
rs12328303	0.81[AMR][1000 genomes]
rs13402276	0.83[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3412938	chr2:86370969-86867936	Strong transcription Enhancers Genic enhancers Weak transcription Flanking Bivalent TSS/Enh Active TSS Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	77 gene(s)	inside rSNPs	diseases
2	nsv532724	chr2:86622295-87086407	Weak transcription Active TSS Genic enhancers Enhancers Flanking Active TSS Strong transcription Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	45 gene(s)	inside rSNPs	diseases
3	nsv1011590	chr2:86824181-86906114	Active TSS Strong transcription Genic enhancers Enhancers Weak transcription Transcr. at gene 5' and 3' Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	22 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:48 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:86851000-86860400	Weak transcription	Lung	lung
2	chr2:86851200-86860400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
3	chr2:86851800-86860400	Weak transcription	Fetal Muscle Trunk	muscle
4	chr2:86853000-86860400	Weak transcription	Brain Inferior Temporal Lobe	brain
5	chr2:86856000-86860200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
6	chr2:86856600-86860400	Weak transcription	Psoas Muscle	Psoas
7	chr2:86858400-86860600	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
8	chr2:86858400-86860800	Enhancers	Fetal Intestine Large	intestine
9	chr2:86858600-86860200	Enhancers	ES-I3 Cell Line	embryonic stem cell
10	chr2:86858600-86860400	Enhancers	Placenta	Placenta
11	chr2:86858600-86860800	Flanking Active TSS	HepG2	liver
12	chr2:86858600-86861000	Enhancers	Primary hematopoietic stem cells	blood
13	chr2:86858600-86861200	Enhancers	Cortex derived primary cultured neurospheres	brain
14	chr2:86858600-86861200	Enhancers	Brain Germinal Matrix	brain
15	chr2:86858600-86861400	Enhancers	Fetal Muscle Leg	muscle
16	chr2:86858800-86860200	Enhancers	HUES6 Cell Line	embryonic stem cell
17	chr2:86858800-86860600	Enhancers	Fetal Brain Female	brain
18	chr2:86858800-86861200	Enhancers	Fetal Intestine Small	intestine
19	chr2:86859000-86860200	Flanking Active TSS	Liver	Liver
20	chr2:86859000-86860800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
21	chr2:86859000-86861200	Enhancers	Brain Hippocampus Middle	brain
22	chr2:86859200-86860200	Weak transcription	Sigmoid Colon	Sigmoid Colon
23	chr2:86859200-86860400	Weak transcription	Left Ventricle	heart
24	chr2:86859200-86860600	Weak transcription	Gastric	stomach
25	chr2:86859200-86860800	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
26	chr2:86859200-86861400	Enhancers	Skeletal Muscle Female	skeletal muscle
27	chr2:86859200-86861800	Enhancers	Fetal Brain Male	brain
28	chr2:86859400-86860200	Weak transcription	Colon Smooth Muscle	Colon
29	chr2:86859400-86860200	Enhancers	NHEK	skin
30	chr2:86859400-86860600	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
31	chr2:86859400-86861200	Enhancers	Brain Cingulate Gyrus	brain
32	chr2:86859400-86863000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
33	chr2:86859600-86860200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
34	chr2:86859600-86860200	Weak transcription	HUES48 Cell Line	embryonic stem cell
35	chr2:86859600-86860800	Enhancers	Colonic Mucosa	Colon
36	chr2:86859800-86860200	Weak transcription	Brain Substantia Nigra	brain
37	chr2:86859800-86860200	Active TSS	Rectal Mucosa Donor 31	rectum
38	chr2:86859800-86860400	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
39	chr2:86860000-86860200	Enhancers	Small Intestine	intestine
40	chr2:86860000-86860600	Enhancers	Breast Myoepithelial Primary Cells	Breast
41	chr2:86860000-86860800	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
42	chr2:86860000-86860800	Enhancers	Brain Angular Gyrus	brain
43	chr2:86860000-86860800	Enhancers	Brain Anterior Caudate	brain
44	chr2:86860000-86860800	Flanking Active TSS	Rectal Mucosa Donor 29	rectum
45	chr2:86860000-86860800	Flanking Active TSS	A549	lung
46	chr2:86860000-86861200	Enhancers	Duodenum Mucosa	Duodenum
47	chr2:86860000-86861200	Enhancers	Pancreas	Pancrea
48	chr2:86860000-86861400	Enhancers	Stomach Mucosa	stomach

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links