Variant report

Variant	rs45560245
Chromosome Location	chr13:98118405-98118406
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr13:98117797..98119463-chr13:98126579..98129118,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000271625	Chromatin interaction

Extended variants
information (count: 52 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:51)

rs_ID	r²[population]
rs10161600	1.00[AMR][1000 genomes]
rs12100323	1.00[EUR][1000 genomes]
rs12184576	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13378123	0.83[AMR][1000 genomes]
rs13378494	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs13378500	1.00[AMR][1000 genomes]
rs13378554	0.83[AMR][1000 genomes]
rs13378832	0.83[AMR][1000 genomes]
rs13378938	1.00[AMR][1000 genomes]
rs16954162	0.93[EUR][1000 genomes]
rs34575456	0.87[EUR][1000 genomes]
rs55935003	0.83[AMR][1000 genomes]
rs60500694	1.00[EUR][1000 genomes]
rs7318655	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs73564120	0.93[EUR][1000 genomes]
rs73564126	0.93[EUR][1000 genomes]
rs73564135	0.93[EUR][1000 genomes]
rs73564148	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs9300411	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9300412	1.00[EUR][1000 genomes]
rs9300413	1.00[EUR][1000 genomes]
rs9582131	1.00[AMR][1000 genomes]
rs9582132	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9582133	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9582134	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9582135	1.00[EUR][1000 genomes]
rs9582136	0.87[AFR][1000 genomes];0.83[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs9582137	0.93[EUR][1000 genomes]
rs9582138	0.80[EUR][1000 genomes]
rs9582139	0.80[EUR][1000 genomes]
rs9582144	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs9582147	0.86[EUR][1000 genomes]
rs9584572	0.83[AMR][1000 genomes]
rs9584573	0.83[AMR][1000 genomes]
rs9584574	1.00[AMR][1000 genomes]
rs9584576	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9584577	1.00[EUR][1000 genomes]
rs9584578	1.00[EUR][1000 genomes]
rs9584579	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9584580	1.00[EUR][1000 genomes]
rs9584581	1.00[EUR][1000 genomes]
rs9584582	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9584583	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9584595	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs9584596	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs9584598	0.93[EUR][1000 genomes]
rs9584599	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs9584600	0.87[EUR][1000 genomes]
rs9584615	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs9584626	0.87[EUR][1000 genomes]
rs9805408	0.87[EUR][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	nsv832694	chr13:97930561-98137882	ZNF genes & repeats Weak transcription Strong transcription Enhancers Flanking Active TSS Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:105 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:98087400-98122200	Weak transcription	Gastric	stomach
2	chr13:98087600-98124400	Weak transcription	Pancreas	Pancrea
3	chr13:98088600-98119600	Weak transcription	NH-A	brain
4	chr13:98088800-98119000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
5	chr13:98089200-98126600	Weak transcription	Stomach Smooth Muscle	stomach
6	chr13:98089800-98122800	Weak transcription	Small Intestine	intestine
7	chr13:98091800-98123000	Weak transcription	HSMM	muscle
8	chr13:98101400-98123400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
9	chr13:98102200-98126400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
10	chr13:98106000-98119200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
11	chr13:98106000-98124200	Weak transcription	Cortex derived primary cultured neurospheres	brain
12	chr13:98108600-98134600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
13	chr13:98112000-98126600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
14	chr13:98112200-98125000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
15	chr13:98112600-98119400	Weak transcription	Colon Smooth Muscle	Colon
16	chr13:98112800-98119600	Weak transcription	Skeletal Muscle Male	skeletal muscle
17	chr13:98113200-98119000	Weak transcription	NHLF	lung
18	chr13:98113200-98120400	Weak transcription	Fetal Brain Male	brain
19	chr13:98113200-98120800	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
20	chr13:98113200-98124200	Weak transcription	Spleen	Spleen
21	chr13:98113400-98127200	Weak transcription	Right Atrium	heart
22	chr13:98113600-98118600	Weak transcription	Primary T killer memory cells from peripheral blood	blood
23	chr13:98113800-98118800	Weak transcription	Fetal Heart	heart
24	chr13:98114000-98119400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
25	chr13:98115200-98118800	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
26	chr13:98115600-98119200	Weak transcription	HepG2	liver
27	chr13:98116200-98118800	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
28	chr13:98116400-98118600	Strong transcription	GM12878-XiMat	blood
29	chr13:98116800-98121400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
30	chr13:98116800-98124800	Weak transcription	Fetal Intestine Small	intestine
31	chr13:98116800-98126600	Weak transcription	Fetal Stomach	stomach
32	chr13:98116800-98127200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
33	chr13:98117000-98118600	Weak transcription	H1 Cell Line	embryonic stem cell
34	chr13:98117000-98118600	Weak transcription	Primary hematopoietic stem cells short term culture	blood
35	chr13:98117000-98118600	Weak transcription	Fetal Thymus	thymus
36	chr13:98117000-98119000	Weak transcription	Liver	Liver
37	chr13:98117000-98119000	Weak transcription	Ovary	ovary
38	chr13:98117000-98119600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
39	chr13:98117000-98119600	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
40	chr13:98117000-98119800	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
41	chr13:98117000-98120000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
42	chr13:98117000-98120600	Weak transcription	Rectal Mucosa Donor 31	rectum
43	chr13:98117000-98120600	Weak transcription	NHEK	skin
44	chr13:98117000-98124200	Weak transcription	Lung	lung
45	chr13:98117000-98124400	Weak transcription	Sigmoid Colon	Sigmoid Colon
46	chr13:98117000-98126600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
47	chr13:98117000-98126600	Weak transcription	Aorta	Aorta
48	chr13:98117000-98130000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
49	chr13:98117000-98130000	Weak transcription	Duodenum Smooth Muscle	Duodenum
50	chr13:98117200-98119000	Weak transcription	Rectal Mucosa Donor 29	rectum

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links