Variant report

Variant	rs9568365
Chromosome Location	chr13:50555355-50555356
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr13:50554620..50556455-chr13:50570997..50572781,2	MCF-7	breast:
2	chr13:50551016..50553766-chr13:50554413..50556181,2	MCF-7	breast:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-SPRYD7-1	chr13:50550469-50565502	NONHSAT033771
2	lnc-TRIM13-4	chr13:50554204-50555424	NONHSAT033775

Variant related genes	Relation type
ENSG00000204977	Chromatin interaction

Extended variants
information (count: 31 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:27)

rs_ID	r²[population]
rs12429041	0.91[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs12429047	0.81[AMR][1000 genomes];0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12430021	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12430731	0.86[AMR][1000 genomes];0.83[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12584761	0.87[EUR][1000 genomes]
rs12585937	0.89[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1609571	0.81[AMR][1000 genomes];0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs17073758	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2407879	0.81[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2897794	0.88[AMR][1000 genomes];0.87[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4142286	0.85[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs4942896	0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4942898	0.86[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4942902	0.83[AFR][1000 genomes]
rs4942903	0.87[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs7983585	0.86[AMR][1000 genomes];0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9562940	0.90[AMR][1000 genomes];0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9562941	0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9562944	0.95[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9562951	0.91[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs9568348	0.89[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs9568351	0.91[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9568353	0.81[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9568359	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9568361	0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9568371	0.86[AMR][1000 genomes];0.87[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9568379	0.87[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1035151	chr13:50513535-51167850	Weak transcription Flanking Active TSS Strong transcription Enhancers Active TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA	1254 gene(s)	inside rSNPs	diseases
2	esv2753964	chr13:50545399-51421199	Flanking Active TSS Enhancers Bivalent Enhancer Weak transcription Active TSS Genic enhancers Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	1256 gene(s)	inside rSNPs	diseases
3	esv2753492	chr13:50550081-51461720	Enhancers Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Weak transcription Strong transcription Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	1256 gene(s)	inside rSNPs	diseases
4	esv2752608	chr13:50550099-51054499	Weak transcription Enhancers Strong transcription Active TSS Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	1249 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:56 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:50538200-50558000	Weak transcription	Fetal Muscle Trunk	muscle
2	chr13:50539000-50570000	Weak transcription	Fetal Intestine Small	intestine
3	chr13:50540200-50562200	Weak transcription	Adipose Nuclei	Adipose
4	chr13:50540400-50569800	Weak transcription	Primary T cells from cord blood	blood
5	chr13:50543600-50570400	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
6	chr13:50545400-50555800	Weak transcription	Fetal Muscle Leg	muscle
7	chr13:50545400-50559000	Weak transcription	Skeletal Muscle Male	skeletal muscle
8	chr13:50545800-50558000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
9	chr13:50545800-50562000	Weak transcription	Fetal Intestine Large	intestine
10	chr13:50546000-50569200	Weak transcription	Primary B cells from cord blood	blood
11	chr13:50546000-50570000	Weak transcription	NHLF	lung
12	chr13:50547600-50559800	Weak transcription	Pancreas	Pancrea
13	chr13:50547600-50561800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
14	chr13:50547600-50569800	Weak transcription	Dnd41	blood
15	chr13:50549600-50556200	Weak transcription	Fetal Thymus	thymus
16	chr13:50550400-50557600	Weak transcription	Primary neutrophils fromperipheralblood	blood
17	chr13:50550800-50556000	Weak transcription	Monocytes-CD14+_RO01746	blood
18	chr13:50550800-50557600	Weak transcription	Primary monocytes fromperipheralblood	blood
19	chr13:50550800-50558000	Weak transcription	Cortex derived primary cultured neurospheres	brain
20	chr13:50550800-50562200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
21	chr13:50550800-50569600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
22	chr13:50550800-50569800	Weak transcription	NH-A	brain
23	chr13:50551000-50558000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
24	chr13:50551000-50558000	Weak transcription	HSMMtube	muscle
25	chr13:50551000-50559400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
26	chr13:50551000-50560800	Weak transcription	Osteobl	bone
27	chr13:50551000-50562000	Weak transcription	HSMM	muscle
28	chr13:50551000-50562800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
29	chr13:50551000-50569600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
30	chr13:50551000-50569600	Weak transcription	Brain Hippocampus Middle	brain
31	chr13:50551000-50569800	Weak transcription	Muscle Satellite Cultured Cells	--
32	chr13:50551000-50569800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
33	chr13:50551000-50569800	Weak transcription	Brain Cingulate Gyrus	brain
34	chr13:50551000-50570000	Weak transcription	Sigmoid Colon	Sigmoid Colon
35	chr13:50551000-50570200	Weak transcription	Placenta Amnion	Placenta Amnion
36	chr13:50551200-50555600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
37	chr13:50551200-50562200	Weak transcription	NHDF-Ad	bronchial
38	chr13:50551200-50569600	Weak transcription	Primary hematopoietic stem cells	blood
39	chr13:50551400-50555800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
40	chr13:50551400-50558400	Weak transcription	Thymus	Thymus
41	chr13:50551400-50570200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
42	chr13:50552400-50568800	Weak transcription	GM12878-XiMat	blood
43	chr13:50552400-50570200	Weak transcription	Lung	lung
44	chr13:50552600-50558200	Weak transcription	Skeletal Muscle Female	skeletal muscle
45	chr13:50552800-50558000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
46	chr13:50552800-50569800	Weak transcription	Fetal Lung	lung
47	chr13:50552800-50569800	Weak transcription	Placenta	Placenta
48	chr13:50552800-50570200	Weak transcription	Spleen	Spleen
49	chr13:50553600-50570000	Weak transcription	Left Ventricle	heart
50	chr13:50554800-50558200	Weak transcription	HepG2	liver

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links