Variant report

Variant	rs9576864
Chromosome Location	chr13:40139773-40139774
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 35 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:33)

rs_ID	r²[population]
rs10459367	0.84[EUR][1000 genomes]
rs12585456	0.83[EUR][1000 genomes]
rs17060245	0.83[AFR][1000 genomes];0.87[EUR][1000 genomes]
rs58418761	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs58662524	0.87[EUR][1000 genomes]
rs58918104	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs59531868	0.84[EUR][1000 genomes]
rs72621301	0.87[EUR][1000 genomes]
rs72621302	0.84[EUR][1000 genomes]
rs72623303	0.91[AFR][1000 genomes];0.87[AMR][1000 genomes];0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs72623305	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7337970	0.84[EUR][1000 genomes]
rs9315708	0.97[EUR][1000 genomes]
rs9566452	0.84[EUR][1000 genomes]
rs9566455	0.87[EUR][1000 genomes]
rs9566456	0.87[EUR][1000 genomes]
rs9566460	0.80[EUR][1000 genomes]
rs9576839	0.84[EUR][1000 genomes]
rs9576844	0.87[EUR][1000 genomes]
rs9576845	0.87[EUR][1000 genomes]
rs9576846	0.87[EUR][1000 genomes]
rs9576847	0.87[EUR][1000 genomes]
rs9576849	0.83[AFR][1000 genomes];0.87[EUR][1000 genomes]
rs9576853	0.83[AFR][1000 genomes];0.87[EUR][1000 genomes]
rs9576855	0.91[AFR][1000 genomes];0.87[EUR][1000 genomes]
rs9576856	0.93[AMR][1000 genomes];0.87[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9576857	0.83[AFR][1000 genomes];0.93[AMR][1000 genomes];0.85[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9576858	0.83[AFR][1000 genomes];0.93[AMR][1000 genomes];0.87[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9576860	0.93[AMR][1000 genomes];0.88[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9576863	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9576866	0.85[EUR][1000 genomes]
rs9576867	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9576868	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.89[ASN][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	esv2754118	chr13:39347702-40222644	Flanking Active TSS Enhancers Weak transcription ZNF genes & repeats Bivalent Enhancer Strong transcription Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	22 gene(s)	inside rSNPs	diseases
2	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

No data

Chromatin state (count:67 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:40107800-40140200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
2	chr13:40129000-40145600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
3	chr13:40129000-40152800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
4	chr13:40132200-40145600	Weak transcription	Fetal Muscle Trunk	muscle
5	chr13:40134200-40139800	Weak transcription	Fetal Muscle Leg	muscle
6	chr13:40135400-40139800	Weak transcription	Right Atrium	heart
7	chr13:40135800-40142000	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
8	chr13:40135800-40145600	Weak transcription	Lung	lung
9	chr13:40136400-40145600	Weak transcription	Right Ventricle	heart
10	chr13:40136800-40140800	Enhancers	Ovary	ovary
11	chr13:40136800-40141200	Enhancers	Cortex derived primary cultured neurospheres	brain
12	chr13:40137000-40140600	Enhancers	Fetal Heart	heart
13	chr13:40137600-40140200	Enhancers	H1 Cell Line	embryonic stem cell
14	chr13:40137600-40140200	Enhancers	Colon Smooth Muscle	Colon
15	chr13:40138400-40139800	Weak transcription	Left Ventricle	heart
16	chr13:40138600-40140400	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
17	chr13:40138600-40140400	Flanking Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
18	chr13:40138600-40140400	Flanking Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
19	chr13:40138600-40140400	Enhancers	Adipose Nuclei	Adipose
20	chr13:40138800-40139800	Flanking Active TSS	Muscle Satellite Cultured Cells	--
21	chr13:40138800-40139800	Enhancers	Brain Cingulate Gyrus	brain
22	chr13:40138800-40139800	Enhancers	Brain Substantia Nigra	brain
23	chr13:40138800-40139800	Flanking Active TSS	NHDF-Ad	bronchial
24	chr13:40138800-40140000	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
25	chr13:40138800-40140400	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
26	chr13:40138800-40141600	Weak transcription	H9 Cell Line	embryonic stem cell
27	chr13:40138800-40152800	Weak transcription	Aorta	Aorta
28	chr13:40139000-40140200	Flanking Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
29	chr13:40139000-40140400	Active TSS	A549	lung
30	chr13:40139000-40140400	Enhancers	HUVEC	blood vessel
31	chr13:40139000-40140600	Enhancers	Brain Anterior Caudate	brain
32	chr13:40139000-40140600	Enhancers	Fetal Lung	lung
33	chr13:40139200-40139800	Flanking Active TSS	ES-I3 Cell Line	embryonic stem cell
34	chr13:40139200-40139800	Enhancers	Fetal Brain Female	brain
35	chr13:40139200-40139800	Flanking Active TSS	NH-A	brain
36	chr13:40139200-40140200	Flanking Active TSS	HUES6 Cell Line	embryonic stem cell
37	chr13:40139200-40140200	Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
38	chr13:40139200-40140400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
39	chr13:40139200-40140400	Weak transcription	Placenta Amnion	Placenta Amnion
40	chr13:40139200-40140600	Flanking Active TSS	NHEK	skin
41	chr13:40139200-40158000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
42	chr13:40139400-40139800	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
43	chr13:40139400-40139800	Flanking Active TSS	Ganglion Eminence derived primary cultured neurospheres	brain
44	chr13:40139400-40139800	Flanking Active TSS	HSMMtube	muscle
45	chr13:40139400-40140000	Active TSS	IMR90 fetal lung fibroblasts Cell Line	lung
46	chr13:40139400-40140200	Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
47	chr13:40139400-40140400	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
48	chr13:40139400-40140400	Flanking Active TSS	HMEC	breast
49	chr13:40139600-40139800	Flanking Active TSS	HUES48 Cell Line	embryonic stem cell
50	chr13:40139600-40139800	Flanking Active TSS	iPS-15b Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links