Variant report

Variant	rs11840841
Chromosome Location	chr13:40349194-40349195
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr13:40343415..40346498-chr13:40346695..40349589,3	MCF-7	breast:

Extended variants
information (count: 9 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:3)

rs_ID	r²[population]
rs11839208	1.00[AMR][1000 genomes]
rs73459943	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73463989	1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1054600	chr13:39801283-40545027	Weak transcription Enhancers ZNF genes & repeats Active TSS Flanking Active TSS Strong transcription Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA	16 gene(s)	inside rSNPs	diseases
2	nsv1054797	chr13:40198744-40618428	Enhancers Weak transcription Strong transcription ZNF genes & repeats Active TSS Flanking Active TSS Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	10 gene(s)	inside rSNPs	diseases
3	nsv541755	chr13:40198744-40618428	Weak transcription Enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Active TSS 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	10 gene(s)	inside rSNPs	diseases
4	nsv832586	chr13:40222880-40379063	Enhancers Strong transcription Weak transcription Active TSS Genic enhancers Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region miRNA	6 gene(s)	inside rSNPs	diseases
5	nsv1040458	chr13:40249387-40638129	Weak transcription Enhancers Strong transcription ZNF genes & repeats Genic enhancers Flanking Active TSS Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
6	nsv471130	chr13:40261945-40350912	Strong transcription Enhancers Weak transcription Genic enhancers ZNF genes & repeats Flanking Active TSS Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs11840841	FOXO1	cis	lymphoblastoid	seeQTL

Chromatin state (count:30 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:40312200-40351200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr13:40327400-40352200	Weak transcription	Primary T cells from cord blood	blood
3	chr13:40340400-40353600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
4	chr13:40340400-40361200	Weak transcription	Pancreas	Pancrea
5	chr13:40340600-40351200	Weak transcription	Gastric	stomach
6	chr13:40340600-40351200	Weak transcription	Right Ventricle	heart
7	chr13:40341400-40350600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
8	chr13:40341800-40356600	Weak transcription	Rectal Smooth Muscle	rectum
9	chr13:40342400-40350200	Weak transcription	HSMMtube	muscle
10	chr13:40342600-40351200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
11	chr13:40342600-40360200	Weak transcription	Fetal Muscle Leg	muscle
12	chr13:40342800-40351200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
13	chr13:40343600-40349200	Weak transcription	Sigmoid Colon	Sigmoid Colon
14	chr13:40345200-40350400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
15	chr13:40345400-40354800	Weak transcription	Brain Anterior Caudate	brain
16	chr13:40347800-40355200	Enhancers	HUVEC	blood vessel
17	chr13:40348000-40349200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
18	chr13:40348000-40349800	Enhancers	Ovary	ovary
19	chr13:40348200-40351600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
20	chr13:40348400-40349600	Weak transcription	HSMM	muscle
21	chr13:40348400-40350200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
22	chr13:40348400-40350200	Weak transcription	NH-A	brain
23	chr13:40348400-40350200	Weak transcription	NHLF	lung
24	chr13:40348400-40350600	Weak transcription	NHDF-Ad	bronchial
25	chr13:40348400-40351200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
26	chr13:40348400-40351200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
27	chr13:40348600-40349600	Weak transcription	Muscle Satellite Cultured Cells	--
28	chr13:40348600-40349600	Weak transcription	Osteobl	bone
29	chr13:40348600-40350200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
30	chr13:40348600-40351800	Weak transcription	Fetal Adrenal Gland	Adrenal Gland

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links