Variant report

Variant	rs9588146
Chromosome Location	chr13:111006742-111006743
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	chr13:111000060..111002459-chr13:111005280..111006914,2	MCF-7	breast:

Extended variants
information (count: 8 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:6)

rs_ID	r²[population]
rs4773164	0.85[AMR][1000 genomes]
rs480831	1.00[CEU][hapmap]
rs61222886	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs630968	1.00[CEU][hapmap]
rs9521753	1.00[CEU][hapmap]
rs9583487	0.88[LWK][hapmap];0.88[MKK][hapmap];0.87[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1038914	chr13:110860219-111190104	Weak transcription Enhancers Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3' Strong transcription Bivalent Enhancer ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	12 gene(s)	inside rSNPs	diseases
2	nsv1046423	chr13:110936104-111286607	Weak transcription Strong transcription Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Active TSS Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	28 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:76 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:110972600-111007200	Weak transcription	Gastric	stomach
2	chr13:110993800-111007200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
3	chr13:110994000-111019600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
4	chr13:110994400-111007200	Weak transcription	Fetal Kidney	kidney
5	chr13:110995200-111007000	Weak transcription	HUES64 Cell Line	embryonic stem cell
6	chr13:110996000-111009800	Weak transcription	Cortex derived primary cultured neurospheres	brain
7	chr13:111000000-111009400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
8	chr13:111000000-111009800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
9	chr13:111000400-111007200	Weak transcription	Pancreas	Pancrea
10	chr13:111000600-111008600	Weak transcription	Esophagus	oesophagus
11	chr13:111000600-111013800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
12	chr13:111000800-111019800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
13	chr13:111001000-111009800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
14	chr13:111001200-111009800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
15	chr13:111001600-111008000	Genic enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
16	chr13:111001600-111012200	Genic enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
17	chr13:111001800-111009800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
18	chr13:111001800-111009800	Weak transcription	NHLF	lung
19	chr13:111002000-111010400	Weak transcription	Muscle Satellite Cultured Cells	--
20	chr13:111002000-111015200	Weak transcription	Brain Substantia Nigra	brain
21	chr13:111002200-111008800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
22	chr13:111002400-111008600	Enhancers	Rectal Smooth Muscle	rectum
23	chr13:111002400-111009800	Weak transcription	HSMMtube	muscle
24	chr13:111002400-111026000	Weak transcription	Psoas Muscle	Psoas
25	chr13:111003200-111009600	Enhancers	Fetal Heart	heart
26	chr13:111003200-111009800	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
27	chr13:111003200-111009800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
28	chr13:111003400-111009800	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
29	chr13:111003800-111008000	Enhancers	Lung	lung
30	chr13:111004000-111009600	Enhancers	Colon Smooth Muscle	Colon
31	chr13:111004200-111006800	Strong transcription	HSMM	muscle
32	chr13:111004200-111007400	Enhancers	Adipose Nuclei	Adipose
33	chr13:111004200-111007600	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
34	chr13:111004400-111007200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
35	chr13:111004400-111007800	Genic enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
36	chr13:111004400-111009000	Genic enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
37	chr13:111004400-111009800	Weak transcription	HUVEC	blood vessel
38	chr13:111004600-111007200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
39	chr13:111004600-111007200	Weak transcription	HMEC	breast
40	chr13:111004600-111007800	Enhancers	Sigmoid Colon	Sigmoid Colon
41	chr13:111004600-111009800	Weak transcription	NHEK	skin
42	chr13:111004600-111012000	Weak transcription	Skeletal Muscle Female	skeletal muscle
43	chr13:111004800-111007200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
44	chr13:111004800-111007200	Enhancers	Fetal Stomach	stomach
45	chr13:111004800-111007800	Enhancers	Fetal Muscle Leg	muscle
46	chr13:111005000-111007600	Enhancers	Rectal Mucosa Donor 31	rectum
47	chr13:111005000-111007800	Enhancers	Colonic Mucosa	Colon
48	chr13:111005000-111012400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
49	chr13:111005200-111007200	Weak transcription	HUES6 Cell Line	embryonic stem cell
50	chr13:111005200-111007800	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links