Variant report

Variant	rs73562539
Chromosome Location	chr13:79906233-79906234
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	chr13:79904552..79907167-chr7:5465284..5467167,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000272953	Chromatin interaction

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

rSNPs within LD-proxies of this variant (count:9)

rs_ID	r²[population]
rs10507898	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17071233	1.00[EUR][1000 genomes]
rs17071247	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17071257	1.00[EUR][1000 genomes]
rs60194813	1.00[ASN][1000 genomes]
rs61151618	0.82[AFR][1000 genomes];0.92[EUR][1000 genomes]
rs73234681	1.00[ASN][1000 genomes]
rs7331979	0.92[EUR][1000 genomes]
rs73560552	0.92[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv900586	chr13:79892722-79968467	Weak transcription Flanking Active TSS Enhancers Strong transcription ZNF genes & repeats Genic enhancers Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
2	nsv900587	chr13:79894736-79956691	Weak transcription Strong transcription Enhancers Genic enhancers Flanking Active TSS ZNF genes & repeats	TF binding region Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
3	nsv832657	chr13:79904978-80099108	Active TSS Weak transcription Enhancers Strong transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	34 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:122 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:79882200-79907400	Weak transcription	Fetal Muscle Leg	muscle
2	chr13:79882200-79907600	Weak transcription	Brain Anterior Caudate	brain
3	chr13:79882200-79909800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
4	chr13:79882400-79911200	Weak transcription	Left Ventricle	heart
5	chr13:79882400-79911200	Weak transcription	Ovary	ovary
6	chr13:79882400-79914400	Weak transcription	Rectal Smooth Muscle	rectum
7	chr13:79882400-79925000	Weak transcription	HSMMtube	muscle
8	chr13:79884400-79909000	Weak transcription	Brain Hippocampus Middle	brain
9	chr13:79886400-79911200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
10	chr13:79886600-79950200	Weak transcription	Fetal Brain Male	brain
11	chr13:79887000-79907800	Weak transcription	Colon Smooth Muscle	Colon
12	chr13:79887200-79946600	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
13	chr13:79887800-79907800	Weak transcription	NHLF	lung
14	chr13:79888000-79942800	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
15	chr13:79888200-79947000	Strong transcription	Monocytes-CD14+_RO01746	blood
16	chr13:79888400-79947000	Strong transcription	HUES64 Cell Line	embryonic stem cell
17	chr13:79889400-79909800	Weak transcription	Primary T killer memory cells from peripheral blood	blood
18	chr13:79889600-79907800	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
19	chr13:79889800-79909800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
20	chr13:79889800-79916200	Weak transcription	Fetal Heart	heart
21	chr13:79891400-79911200	Weak transcription	Esophagus	oesophagus
22	chr13:79891600-79911200	Weak transcription	H9 Cell Line	embryonic stem cell
23	chr13:79891600-79946800	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
24	chr13:79891600-79947000	Strong transcription	Primary monocytes fromperipheralblood	blood
25	chr13:79891600-79947000	Strong transcription	Dnd41	blood
26	chr13:79891800-79929200	Strong transcription	HUES48 Cell Line	embryonic stem cell
27	chr13:79891800-79935800	Strong transcription	Primary T helper cells fromperipheralblood	blood
28	chr13:79892400-79907600	Weak transcription	Brain Inferior Temporal Lobe	brain
29	chr13:79892800-79928200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
30	chr13:79893200-79907800	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
31	chr13:79893200-79957800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
32	chr13:79893600-79909400	Weak transcription	Placenta Amnion	Placenta Amnion
33	chr13:79894200-79910000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
34	chr13:79894200-79940200	Weak transcription	Small Intestine	intestine
35	chr13:79894400-79909200	Weak transcription	Brain Germinal Matrix	brain
36	chr13:79894400-79910600	Weak transcription	Thymus	Thymus
37	chr13:79894400-79950200	Weak transcription	Stomach Mucosa	stomach
38	chr13:79895200-79909400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
39	chr13:79896000-79908000	Weak transcription	Skeletal Muscle Male	skeletal muscle
40	chr13:79896000-79908000	Weak transcription	Stomach Smooth Muscle	stomach
41	chr13:79896000-79910600	Weak transcription	Aorta	Aorta
42	chr13:79896200-79907200	Weak transcription	HUVEC	blood vessel
43	chr13:79896200-79907600	Weak transcription	Duodenum Smooth Muscle	Duodenum
44	chr13:79896200-79908600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
45	chr13:79896200-79908600	Weak transcription	Primary T helper naive cells from peripheral blood	blood
46	chr13:79896200-79909000	Weak transcription	Fetal Brain Female	brain
47	chr13:79896200-79912600	Strong transcription	Hela-S3	cervix
48	chr13:79896600-79907600	Weak transcription	H1 Cell Line	embryonic stem cell
49	chr13:79896600-79907600	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
50	chr13:79896600-79908000	Weak transcription	NHDF-Ad	bronchial

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