Variant report

Variant	rs13409112
Chromosome Location	chr2:11460833-11460834
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr2:11454425..11456556-chr2:11460014..11461725,2	MCF-7	breast:
2	chr2:11459798..11462037-chr2:11515531..11517179,2	K562	blood:
3	chr2:11455012..11458402-chr2:11459652..11462468,3	K562	blood:
4	chr2:11455012..11457129-chr2:11460561..11462468,2	K562	blood:

Extended variants
information (count: 11 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:8)

rs_ID	r²[population]
rs10168273	1.00[AFR][1000 genomes]
rs10187792	1.00[AFR][1000 genomes]
rs10202636	1.00[AFR][1000 genomes]
rs10202739	1.00[AFR][1000 genomes]
rs10210180	1.00[AFR][1000 genomes]
rs13393890	1.00[AFR][1000 genomes]
rs13398467	1.00[AFR][1000 genomes]
rs72789506	1.00[AFR][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	nsv526038	chr2:11369078-11489531	Weak transcription ZNF genes & repeats Enhancers Flanking Active TSS Strong transcription Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	19 gene(s)	inside rSNPs	diseases
2	nsv1010506	chr2:11430965-12057286	Enhancers Strong transcription Weak transcription Bivalent Enhancer Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	88 gene(s)	inside rSNPs	diseases
3	nsv535585	chr2:11430965-12057286	Enhancers Flanking Active TSS Bivalent/Poised TSS Weak transcription ZNF genes & repeats Active TSS Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	88 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	chr2:11445000-11465200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
2	chr2:11447200-11466200	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
3	chr2:11448000-11465800	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
4	chr2:11450600-11466600	Weak transcription	NHLF	lung
5	chr2:11451400-11461000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
6	chr2:11451600-11467000	Weak transcription	Primary B cells from cord blood	blood
7	chr2:11451800-11466000	Weak transcription	Cortex derived primary cultured neurospheres	brain
8	chr2:11452000-11466000	Weak transcription	Small Intestine	intestine
9	chr2:11454400-11469800	Weak transcription	Fetal Brain Male	brain
10	chr2:11454600-11466000	Weak transcription	Brain Angular Gyrus	brain
11	chr2:11455000-11462800	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
12	chr2:11455000-11469200	Weak transcription	Pancreatic Islets	Pancreatic Islet
13	chr2:11455200-11466600	Weak transcription	Duodenum Smooth Muscle	Duodenum
14	chr2:11455600-11465400	Weak transcription	NHDF-Ad	bronchial
15	chr2:11456000-11469400	Weak transcription	HSMM	muscle
16	chr2:11456200-11466000	Weak transcription	Brain Inferior Temporal Lobe	brain
17	chr2:11456800-11466400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
18	chr2:11457200-11476400	Weak transcription	Fetal Intestine Small	intestine
19	chr2:11457400-11469800	Weak transcription	Hela-S3	cervix
20	chr2:11457600-11461000	Weak transcription	HepG2	liver
21	chr2:11459400-11462800	Weak transcription	Primary hematopoietic stem cells short term culture	blood
22	chr2:11459800-11469400	Weak transcription	Rectal Smooth Muscle	rectum
23	chr2:11460000-11461200	Enhancers	Adipose Nuclei	Adipose
24	chr2:11460000-11461200	Enhancers	Ovary	ovary
25	chr2:11460000-11461200	Enhancers	K562	blood
26	chr2:11460000-11461600	Enhancers	Right Atrium	heart
27	chr2:11460000-11462200	Enhancers	Psoas Muscle	Psoas
28	chr2:11460000-11462200	Enhancers	Skeletal Muscle Female	skeletal muscle
29	chr2:11460000-11464200	Enhancers	Skeletal Muscle Male	skeletal muscle
30	chr2:11460200-11461000	Genic enhancers	A549	lung
31	chr2:11460200-11461200	Enhancers	Breast Myoepithelial Primary Cells	Breast
32	chr2:11460200-11461200	Enhancers	Colon Smooth Muscle	Colon
33	chr2:11460200-11461200	Enhancers	Fetal Heart	heart
34	chr2:11460200-11462400	Enhancers	Left Ventricle	heart
35	chr2:11460400-11461200	Enhancers	Brain Anterior Caudate	brain
36	chr2:11460600-11461000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
37	chr2:11460600-11461400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
38	chr2:11460600-11469400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
39	chr2:11460800-11461000	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
40	chr2:11460800-11461000	Enhancers	Right Ventricle	heart
41	chr2:11460800-11461000	Enhancers	Sigmoid Colon	Sigmoid Colon
42	chr2:11460800-11461200	Enhancers	Liver	Liver
43	chr2:11460800-11461400	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
44	chr2:11460800-11461600	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
45	chr2:11460800-11461600	Enhancers	Gastric	stomach
46	chr2:11460800-11461600	Enhancers	Pancreas	Pancrea
47	chr2:11460800-11462200	Enhancers	Lung	lung
48	chr2:11460800-11469800	Weak transcription	Fetal Lung	lung

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