Variant report

Variant	rs1538599
Chromosome Location	chr10:95548838-95548839
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

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

rSNPs within LD-proxies of this variant (count:15)

rs_ID	r²[population]
rs10736081	0.94[AFR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10736082	0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10882335	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10882336	0.96[AFR][1000 genomes];0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10882337	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11187666	0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11187668	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12245206	0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12569635	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12570745	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12571812	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1538598	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4375374	0.94[AFR][1000 genomes];0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4917921	0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7082936	0.94[AFR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv1817213	chr10:95531345-95561397	Enhancers Weak transcription Flanking Active TSS Strong transcription Bivalent Enhancer ZNF genes & repeats Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
2	esv1846291	chr10:95531345-95561397	Enhancers Strong transcription ZNF genes & repeats Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
3	esv1840973	chr10:95534265-95552953	Flanking Active TSS Enhancers Weak transcription Bivalent Enhancer Strong transcription ZNF genes & repeats Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
4	nsv551945	chr10:95545536-95552653	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

Chromatin state (count:18 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:95528600-95559600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
2	chr10:95530000-95554800	Weak transcription	Brain Hippocampus Middle	brain
3	chr10:95530400-95549400	Weak transcription	HUES64 Cell Line	embryonic stem cell
4	chr10:95530600-95558000	Weak transcription	Brain Inferior Temporal Lobe	brain
5	chr10:95535000-95554600	Weak transcription	Brain Anterior Caudate	brain
6	chr10:95539600-95550000	Weak transcription	Fetal Stomach	stomach
7	chr10:95546000-95549000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
8	chr10:95546800-95552400	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
9	chr10:95547000-95555200	Weak transcription	Brain Cingulate Gyrus	brain
10	chr10:95547400-95550200	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
11	chr10:95547600-95550000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
12	chr10:95547800-95549400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
13	chr10:95548000-95549000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
14	chr10:95548000-95549000	Weak transcription	Cortex derived primary cultured neurospheres	brain
15	chr10:95548600-95549400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
16	chr10:95548600-95550400	Enhancers	iPS-18 Cell Line	embryonic stem cell
17	chr10:95548800-95549000	Enhancers	iPS-20b Cell Line	embryonic stem cell
18	chr10:95548800-95549600	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived

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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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