Variant report

Variant	rs55718490
Chromosome Location	chr5:57541605-57541606
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr5:57527499..57530106-chr5:57539853..57541635,2	MCF-7	breast:

Extended variants
information (count: 38 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:37)

rs_ID	r²[population]
rs10036626	0.81[EUR][1000 genomes]
rs10037463	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10039548	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10040715	0.80[AMR][1000 genomes];0.97[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs10053213	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10066944	0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10068496	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10069778	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10069996	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10077937	0.84[AMR][1000 genomes];0.97[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs10472038	0.80[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs10472043	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10472046	0.84[AMR][1000 genomes];0.97[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs12332617	0.89[EUR][1000 genomes]
rs12655438	0.84[AMR][1000 genomes];0.97[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs16887971	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs16887976	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2112901	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2194192	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2194196	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2409009	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs28525674	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs28532131	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4700264	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4700265	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4700270	0.84[AMR][1000 genomes];0.97[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs59448948	0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs62366313	0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs62366742	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs62366744	0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs6874208	0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs6887808	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs6889264	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7706339	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs9784640	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9885152	0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs9885514	0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.80[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	nsv432746	chr5:57502859-57547419	Enhancers Weak transcription Genic enhancers Flanking Active TSS Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:30 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:57526200-57544000	Weak transcription	Aorta	Aorta
2	chr5:57534800-57555200	Weak transcription	Left Ventricle	heart
3	chr5:57536200-57542200	Weak transcription	Skeletal Muscle Female	skeletal muscle
4	chr5:57536600-57544200	Weak transcription	Skeletal Muscle Male	skeletal muscle
5	chr5:57536800-57542200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
6	chr5:57537400-57541800	Weak transcription	NHDF-Ad	bronchial
7	chr5:57537400-57542200	Weak transcription	Osteobl	bone
8	chr5:57537600-57542200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
9	chr5:57537600-57542200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
10	chr5:57537600-57542200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
11	chr5:57537600-57542400	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
12	chr5:57537600-57542400	Weak transcription	NHLF	lung
13	chr5:57537600-57542600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
14	chr5:57537800-57542200	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
15	chr5:57537800-57542200	Weak transcription	Muscle Satellite Cultured Cells	--
16	chr5:57540400-57544200	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
17	chr5:57540600-57541800	Enhancers	Primary hematopoietic stem cells short term culture	blood
18	chr5:57540800-57541800	Weak transcription	Adipose Nuclei	Adipose
19	chr5:57540800-57542200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
20	chr5:57540800-57542800	Weak transcription	Psoas Muscle	Psoas
21	chr5:57540800-57542800	Enhancers	A549	lung
22	chr5:57540800-57543200	Enhancers	Hela-S3	cervix
23	chr5:57541000-57542000	Flanking Active TSS	HUVEC	blood vessel
24	chr5:57541200-57541800	Enhancers	Pancreatic Islets	Pancreatic Islet
25	chr5:57541200-57547000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
26	chr5:57541400-57541800	Enhancers	Right Atrium	heart
27	chr5:57541400-57542600	Enhancers	Spleen	Spleen
28	chr5:57541600-57541800	Enhancers	Primary hematopoietic stem cells	blood
29	chr5:57541600-57542600	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
30	chr5:57541600-57543200	Enhancers	Fetal Adrenal Gland	Adrenal Gland

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