Variant report

Variant	rs61508227
Chromosome Location	chr13:30156029-30156030
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr13:30154508..30157101-chr13:30157805..30160613,2	MCF-7	breast:

Extended variants
information (count: 13 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:12)

rs_ID	r²[population]
rs17073704	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1984029	0.88[AMR][1000 genomes];0.89[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1984030	0.97[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56853211	0.87[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs57340570	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs59260312	0.88[AFR][1000 genomes];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6490411	0.90[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs6490412	0.90[AMR][1000 genomes];0.89[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7318650	0.87[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs8002439	0.87[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs928352	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs928353	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv979	chr13:30122254-30167821	Enhancers Weak transcription Strong transcription Genic enhancers Flanking Active TSS Bivalent Enhancer Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:104 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:30126000-30161400	Weak transcription	Primary B cells from cord blood	blood
2	chr13:30127600-30156400	Weak transcription	Lung	lung
3	chr13:30128000-30163600	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
4	chr13:30128600-30161800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
5	chr13:30128800-30168200	Weak transcription	Primary T cells from cord blood	blood
6	chr13:30138800-30159800	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
7	chr13:30147200-30163200	Weak transcription	Fetal Intestine Small	intestine
8	chr13:30147800-30163600	Weak transcription	Thymus	Thymus
9	chr13:30148200-30156400	Weak transcription	Stomach Mucosa	stomach
10	chr13:30148200-30156600	Weak transcription	A549	lung
11	chr13:30148200-30156800	Weak transcription	NHLF	lung
12	chr13:30148400-30160400	Weak transcription	Primary hematopoietic stem cells	blood
13	chr13:30148400-30167400	Weak transcription	Primary B cells from peripheral blood	blood
14	chr13:30148600-30160800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
15	chr13:30148800-30157400	Weak transcription	GM12878-XiMat	blood
16	chr13:30151600-30156800	Enhancers	Colon Smooth Muscle	Colon
17	chr13:30151600-30157600	Enhancers	Fetal Heart	heart
18	chr13:30152400-30163200	Weak transcription	Spleen	Spleen
19	chr13:30152600-30157800	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
20	chr13:30152600-30168200	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
21	chr13:30153000-30160800	Weak transcription	HUVEC	blood vessel
22	chr13:30153000-30161200	Weak transcription	Aorta	Aorta
23	chr13:30153200-30156800	Weak transcription	HSMMtube	muscle
24	chr13:30153200-30157400	Genic enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
25	chr13:30153200-30161000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
26	chr13:30153400-30156200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
27	chr13:30153400-30159200	Weak transcription	Brain Angular Gyrus	brain
28	chr13:30153600-30156200	Weak transcription	Brain Hippocampus Middle	brain
29	chr13:30153600-30163200	Weak transcription	Fetal Muscle Trunk	muscle
30	chr13:30153800-30157000	Genic enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
31	chr13:30153800-30157600	Enhancers	Right Ventricle	heart
32	chr13:30153800-30158200	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
33	chr13:30154000-30156200	Enhancers	ES-I3 Cell Line	embryonic stem cell
34	chr13:30154200-30156200	Weak transcription	Fetal Muscle Leg	muscle
35	chr13:30154400-30156400	Weak transcription	HepG2	liver
36	chr13:30154400-30157400	Weak transcription	Primary T helper cells PMA-I stimulated	--
37	chr13:30154400-30158400	Enhancers	HUES48 Cell Line	embryonic stem cell
38	chr13:30154400-30158800	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
39	chr13:30154600-30156200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
40	chr13:30154600-30156200	Weak transcription	Esophagus	oesophagus
41	chr13:30154600-30157200	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
42	chr13:30154600-30157600	Enhancers	Breast Myoepithelial Primary Cells	Breast
43	chr13:30154600-30158400	Enhancers	iPS-18 Cell Line	embryonic stem cell
44	chr13:30154600-30160600	Weak transcription	Dnd41	blood
45	chr13:30154600-30163400	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
46	chr13:30154800-30157000	Enhancers	NH-A	brain
47	chr13:30154800-30157800	Enhancers	iPS-15b Cell Line	embryonic stem cell
48	chr13:30154800-30159800	Weak transcription	Primary hematopoietic stem cells short term culture	blood
49	chr13:30155000-30156800	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
50	chr13:30155000-30156800	Enhancers	Rectal Smooth Muscle	rectum

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links