Variant report

Variant	rs10066577
Chromosome Location	chr5:152004270-152004271
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 14 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:12)

rs_ID	r²[population]
rs10036638	1.00[AMR][1000 genomes]
rs10036955	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10037723	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10042517	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10056536	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10062210	1.00[AMR][1000 genomes]
rs10065883	1.00[AMR][1000 genomes]
rs10078553	0.90[AFR][1000 genomes]
rs11950689	1.00[AMR][1000 genomes]
rs11956531	1.00[AMR][1000 genomes]
rs28407304	1.00[AMR][1000 genomes]
rs28730269	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1023676	chr5:151979253-152925064	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
2	nsv537927	chr5:151979253-152925064	Enhancers Weak transcription Genic enhancers Active TSS Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:13 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:152002200-152005400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
2	chr5:152002600-152005000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
3	chr5:152002600-152005000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
4	chr5:152002600-152005000	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
5	chr5:152002600-152005000	Weak transcription	Brain Germinal Matrix	brain
6	chr5:152002600-152005200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
7	chr5:152002600-152010400	Weak transcription	Fetal Lung	lung
8	chr5:152002600-152013600	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
9	chr5:152002600-152014000	Weak transcription	Brain Substantia Nigra	brain
10	chr5:152002800-152008000	Weak transcription	Fetal Brain Male	brain
11	chr5:152004000-152005200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
12	chr5:152004200-152004600	Weak transcription	Cortex derived primary cultured neurospheres	brain
13	chr5:152004200-152014200	Weak transcription	Spleen	Spleen

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dbSNP/dbVar ID: rs12345 /nsv7879
a single nucleotide as 0-based coordinates: chr1:12345
chromosomal regions: chr1:12345-34567

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