Variant report

Variant	rs9576867
Chromosome Location	chr13:40145137-40145138
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 38 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:36)

rs_ID	r²[population]
rs10459367	0.84[EUR][1000 genomes]
rs11841092	0.86[CEU][hapmap]
rs12585456	0.83[EUR][1000 genomes]
rs17060227	0.86[CEU][hapmap]
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	0.86[CHB][hapmap];0.84[EUR][1000 genomes]
rs9315708	1.00[CEU][hapmap];1.00[TSI][hapmap];0.97[EUR][1000 genomes]
rs9566452	0.84[EUR][1000 genomes]
rs9566455	0.87[EUR][1000 genomes]
rs9566456	1.00[CEU][hapmap];1.00[GIH][hapmap];0.81[JPT][hapmap];0.93[TSI][hapmap];0.87[EUR][1000 genomes]
rs9566460	1.00[GIH][hapmap];0.94[TSI][hapmap];0.80[EUR][1000 genomes]
rs9576839	0.84[EUR][1000 genomes]
rs9576844	1.00[CEU][hapmap];0.81[JPT][hapmap];0.87[EUR][1000 genomes]
rs9576845	0.87[EUR][1000 genomes]
rs9576846	0.87[EUR][1000 genomes]
rs9576847	1.00[CEU][hapmap];1.00[GIH][hapmap];0.81[JPT][hapmap];0.93[TSI][hapmap];0.87[EUR][1000 genomes]
rs9576849	0.84[ASW][hapmap];1.00[CEU][hapmap];1.00[GIH][hapmap];0.81[JPT][hapmap];0.93[TSI][hapmap];0.83[AFR][1000 genomes];0.87[EUR][1000 genomes]
rs9576850	0.87[CEU][hapmap]
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]
rs9576864	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9576866	0.85[EUR][1000 genomes]
rs9576868	1.00[CEU][hapmap];0.86[CHB][hapmap];0.91[YRI][hapmap];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:39 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:40129000-40145600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
2	chr13:40129000-40152800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
3	chr13:40132200-40145600	Weak transcription	Fetal Muscle Trunk	muscle
4	chr13:40135800-40145600	Weak transcription	Lung	lung
5	chr13:40136400-40145600	Weak transcription	Right Ventricle	heart
6	chr13:40138800-40152800	Weak transcription	Aorta	Aorta
7	chr13:40139200-40158000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
8	chr13:40139800-40146400	Weak transcription	Brain Substantia Nigra	brain
9	chr13:40140000-40145600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
10	chr13:40140000-40169400	Weak transcription	Fetal Stomach	stomach
11	chr13:40140200-40145600	Weak transcription	H1 Cell Line	embryonic stem cell
12	chr13:40140200-40149600	Weak transcription	Fetal Muscle Leg	muscle
13	chr13:40140400-40145400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
14	chr13:40140400-40157800	Weak transcription	Adipose Nuclei	Adipose
15	chr13:40140600-40145200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
16	chr13:40140600-40146600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
17	chr13:40140600-40148600	Weak transcription	Fetal Lung	lung
18	chr13:40140800-40145400	Weak transcription	Right Atrium	heart
19	chr13:40140800-40152800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
20	chr13:40140800-40165400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
21	chr13:40141200-40145600	Weak transcription	Cortex derived primary cultured neurospheres	brain
22	chr13:40141200-40145600	Weak transcription	NHLF	lung
23	chr13:40142000-40148800	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
24	chr13:40142000-40156200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
25	chr13:40142000-40156200	Weak transcription	Placenta Amnion	Placenta Amnion
26	chr13:40142000-40169400	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
27	chr13:40142000-40169400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
28	chr13:40142200-40150000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
29	chr13:40142200-40152600	Weak transcription	HUES6 Cell Line	embryonic stem cell
30	chr13:40143000-40149400	Weak transcription	Muscle Satellite Cultured Cells	--
31	chr13:40143000-40158200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
32	chr13:40143200-40157800	Weak transcription	NHDF-Ad	bronchial
33	chr13:40143200-40161800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
34	chr13:40143200-40170800	Weak transcription	Osteobl	bone
35	chr13:40143400-40145600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
36	chr13:40143400-40145800	Weak transcription	Ovary	ovary
37	chr13:40143600-40145600	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
38	chr13:40144400-40147200	Enhancers	Fetal Heart	heart
39	chr13:40144800-40146400	Enhancers	Left Ventricle	heart

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links