Variant report

Variant	rs2389823
Chromosome Location	chr13:97929680-97929681
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	chr13:97872309..97876314-chr13:97928603..97932246,5	MCF-7	breast:

Variant related genes	Relation type
ENSG00000139793	Chromatin interaction

Extended variants
information (count: 19 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:18)

rs_ID	r²[population]
rs10508030	0.82[TSI][hapmap]
rs10508031	0.82[TSI][hapmap]
rs12864731	0.85[CEU][hapmap];0.85[GIH][hapmap];0.91[TSI][hapmap]
rs1328834	0.85[CEU][hapmap];1.00[YRI][hapmap]
rs16954000	0.85[CEU][hapmap]
rs17301362	0.85[CEU][hapmap];1.00[YRI][hapmap]
rs7320723	0.90[GIH][hapmap]
rs7321962	0.82[CHB][hapmap];0.90[GIH][hapmap]
rs9513228	0.85[CEU][hapmap]
rs9513229	0.85[CEU][hapmap]
rs9513230	0.85[CEU][hapmap]
rs9516891	0.85[CEU][hapmap]
rs9516895	0.81[ASW][hapmap];0.85[CEU][hapmap];0.96[GIH][hapmap];1.00[YRI][hapmap]
rs9516896	1.00[CEU][hapmap]
rs9516897	0.85[CEU][hapmap];0.85[GIH][hapmap];0.91[TSI][hapmap]
rs9516899	0.85[CEU][hapmap];0.86[YRI][hapmap]
rs953504	0.90[ASW][hapmap];0.85[CEU][hapmap];0.85[GIH][hapmap];0.91[TSI][hapmap]
rs9584541	0.83[ASW][hapmap];0.91[TSI][hapmap]

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	nsv1045777	chr13:97875574-97955134	Enhancers Weak transcription Genic enhancers Flanking Active TSS Active TSS Bivalent Enhancer Bivalent/Poised TSS Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:110 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:97910600-97935000	Weak transcription	Colonic Mucosa	Colon
2	chr13:97914200-97960200	Weak transcription	Fetal Brain Male	brain
3	chr13:97919000-97935000	Weak transcription	Gastric	stomach
4	chr13:97920000-97931200	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
5	chr13:97920200-97930800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
6	chr13:97920400-97932200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
7	chr13:97921400-97932800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
8	chr13:97921400-97934800	Weak transcription	Cortex derived primary cultured neurospheres	brain
9	chr13:97921600-97932800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
10	chr13:97922000-97930200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
11	chr13:97922000-97932200	Weak transcription	Thymus	Thymus
12	chr13:97922000-97933200	Weak transcription	Spleen	Spleen
13	chr13:97924800-97936200	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
14	chr13:97925200-97936400	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
15	chr13:97925400-97933000	Weak transcription	HUES6 Cell Line	embryonic stem cell
16	chr13:97925600-97931000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
17	chr13:97925600-97935600	Weak transcription	Primary T killer memory cells from peripheral blood	blood
18	chr13:97925800-97932200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
19	chr13:97925800-97936600	Weak transcription	Primary hematopoietic stem cells short term culture	blood
20	chr13:97925800-97987200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
21	chr13:97926000-97933000	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
22	chr13:97926800-97930000	Strong transcription	Monocytes-CD14+_RO01746	blood
23	chr13:97926800-97932200	Weak transcription	Esophagus	oesophagus
24	chr13:97926800-97932800	Weak transcription	Pancreas	Pancrea
25	chr13:97926800-97932800	Weak transcription	Right Atrium	heart
26	chr13:97926800-97935000	Weak transcription	Lung	lung
27	chr13:97927200-97930200	Strong transcription	Primary B cells from cord blood	blood
28	chr13:97927600-97929800	Enhancers	Stomach Smooth Muscle	stomach
29	chr13:97927800-97929800	Strong transcription	Primary monocytes fromperipheralblood	blood
30	chr13:97927800-97929800	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
31	chr13:97927800-97929800	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
32	chr13:97927800-97929800	Genic enhancers	Brain Inferior Temporal Lobe	brain
33	chr13:97927800-97929800	Strong transcription	Fetal Thymus	thymus
34	chr13:97927800-97931000	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
35	chr13:97927800-97931800	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
36	chr13:97928000-97929800	Genic enhancers	Brain Substantia Nigra	brain
37	chr13:97928000-97930600	Genic enhancers	Breast Myoepithelial Primary Cells	Breast
38	chr13:97928200-97929800	Genic enhancers	Brain Cingulate Gyrus	brain
39	chr13:97928200-97929800	Genic enhancers	Skeletal Muscle Female	skeletal muscle
40	chr13:97928200-97930000	Genic enhancers	HUVEC	blood vessel
41	chr13:97928400-97929800	Genic enhancers	Muscle Satellite Cultured Cells	--
42	chr13:97928400-97929800	Transcr. at gene 5' and 3'	Liver	Liver
43	chr13:97928400-97929800	Genic enhancers	NHDF-Ad	bronchial
44	chr13:97928600-97929800	Genic enhancers	A549	lung
45	chr13:97928600-97930200	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
46	chr13:97928600-97930200	Weak transcription	Brain Angular Gyrus	brain
47	chr13:97928600-97930800	Weak transcription	Small Intestine	intestine
48	chr13:97928600-97930800	Weak transcription	Stomach Mucosa	stomach
49	chr13:97928600-97931200	Enhancers	Placenta Amnion	Placenta Amnion
50	chr13:97928600-97933400	Enhancers	Primary T helper cells PMA-I stimulated	--

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