Variant report

Variant	rs61490790
Chromosome Location	chr15:40268214-40268215
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr15:40224751..40226290-chr15:40266670..40268838,2	MCF-7	breast:
2	chr15:40261012..40264755-chr15:40266617..40269067,3	MCF-7	breast:
3	chr15:40211915..40214784-chr15:40267072..40270080,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000246863	Chromatin interaction
ENSG00000166073	Chromatin interaction

Extended variants
information (count: 12 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:11)

rs_ID	r²[population]
rs17848499	1.00[ASN][1000 genomes]
rs56246581	1.00[AFR][1000 genomes]
rs59551980	1.00[AFR][1000 genomes]
rs61375261	0.81[AFR][1000 genomes]
rs74009009	1.00[AFR][1000 genomes]
rs74009010	0.86[AFR][1000 genomes]
rs74009078	1.00[AFR][1000 genomes]
rs74009081	0.86[AFR][1000 genomes]
rs74011718	0.81[AFR][1000 genomes]
rs74011721	0.95[AFR][1000 genomes]
rs74011722	1.00[AFR][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	nsv530816	chr15:40003136-40586792	Bivalent Enhancer Strong transcription Enhancers Weak transcription Flanking Bivalent TSS/Enh Flanking Active TSS Genic enhancers ZNF genes & repeats Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	63 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:125 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:40227200-40268400	Weak transcription	Esophagus	oesophagus
2	chr15:40227400-40283400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
3	chr15:40227800-40268400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
4	chr15:40228200-40323800	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
5	chr15:40231000-40268400	Strong transcription	HUES6 Cell Line	embryonic stem cell
6	chr15:40236600-40303000	Weak transcription	Small Intestine	intestine
7	chr15:40238000-40277800	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
8	chr15:40238600-40272200	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
9	chr15:40238800-40273200	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
10	chr15:40241000-40268600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
11	chr15:40241200-40272600	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
12	chr15:40249000-40304800	Weak transcription	Primary T helper naive cells from peripheral blood	blood
13	chr15:40250000-40294800	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
14	chr15:40250200-40299600	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
15	chr15:40253000-40273200	Strong transcription	Monocytes-CD14+_RO01746	blood
16	chr15:40253000-40273800	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
17	chr15:40253200-40273200	Strong transcription	Primary monocytes fromperipheralblood	blood
18	chr15:40254000-40268400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
19	chr15:40257200-40272200	Strong transcription	Primary hematopoietic stem cells short term culture	blood
20	chr15:40257400-40268600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
21	chr15:40258200-40268600	Weak transcription	Gastric	stomach
22	chr15:40260200-40268400	Weak transcription	Psoas Muscle	Psoas
23	chr15:40260200-40268600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
24	chr15:40260200-40268600	Weak transcription	Pancreas	Pancrea
25	chr15:40260800-40268400	Weak transcription	Brain Angular Gyrus	brain
26	chr15:40260800-40268400	Weak transcription	Brain Germinal Matrix	brain
27	chr15:40260800-40268400	Weak transcription	Skeletal Muscle Male	skeletal muscle
28	chr15:40260800-40303400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
29	chr15:40261000-40268400	Weak transcription	Cortex derived primary cultured neurospheres	brain
30	chr15:40261000-40268400	Weak transcription	Brain Anterior Caudate	brain
31	chr15:40261000-40268400	Weak transcription	Colonic Mucosa	Colon
32	chr15:40261000-40268600	Weak transcription	Aorta	Aorta
33	chr15:40261000-40277800	Weak transcription	A549	lung
34	chr15:40261400-40268400	Weak transcription	Brain Cingulate Gyrus	brain
35	chr15:40261400-40268400	Weak transcription	Brain Inferior Temporal Lobe	brain
36	chr15:40261400-40268400	Weak transcription	Fetal Brain Male	brain
37	chr15:40261600-40268400	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
38	chr15:40262600-40268400	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
39	chr15:40262600-40268400	Strong transcription	Osteobl	bone
40	chr15:40262600-40293800	Weak transcription	Stomach Mucosa	stomach
41	chr15:40262800-40268400	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
42	chr15:40263000-40268400	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
43	chr15:40264200-40268600	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
44	chr15:40264400-40268600	Strong transcription	H1 Cell Line	embryonic stem cell
45	chr15:40264600-40268400	Strong transcription	Skeletal Muscle Female	skeletal muscle
46	chr15:40264800-40268400	Weak transcription	Fetal Stomach	stomach
47	chr15:40264800-40270400	Strong transcription	Primary neutrophils fromperipheralblood	blood
48	chr15:40265000-40268600	Strong transcription	H9 Cell Line	embryonic stem cell
49	chr15:40265000-40268600	Weak transcription	Placenta Amnion	Placenta Amnion
50	chr15:40265200-40268400	Genic enhancers	HepG2	liver

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