Variant report

Variant	rs2497821
Chromosome Location	chr10:18369959-18369960
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 19 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:16)

rs_ID	r²[population]
rs2185765	0.86[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs2250678	0.84[AFR][1000 genomes];0.92[AMR][1000 genomes];0.90[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2488153	0.90[AFR][1000 genomes];0.88[AMR][1000 genomes];0.82[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2488154	0.88[AFR][1000 genomes];0.87[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs2488155	0.90[AFR][1000 genomes];0.87[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs2488158	0.87[ASN][1000 genomes]
rs2488160	0.87[ASN][1000 genomes]
rs2497801	0.87[AMR][1000 genomes];0.80[ASN][1000 genomes]
rs2497802	0.87[AMR][1000 genomes];0.81[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2497803	0.87[AMR][1000 genomes];0.81[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2497805	0.90[AFR][1000 genomes];0.87[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs2497806	0.92[ASN][1000 genomes]
rs2497807	0.81[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs2497811	0.82[AFR][1000 genomes];0.86[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs2497820	0.96[AFR][1000 genomes];0.94[AMR][1000 genomes];0.84[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2497823	0.85[ASN][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	nsv550039	chr10:18363924-18425519	Enhancers Weak transcription ZNF genes & repeats Bivalent/Poised TSS Flanking Active TSS Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
2	nsv550040	chr10:18365380-18399519	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	diseases
3	nsv1045547	chr10:18366749-18397247	Enhancers Weak transcription ZNF genes & repeats Bivalent Enhancer Active TSS Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh	Chromatin interactive region	n/a	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs2497821	FAM171A1	cis	cerebellum	SCAN

Chromatin state (count:10 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:18367000-18370000	Enhancers	iPS-18 Cell Line	embryonic stem cell
2	chr10:18368000-18370000	Enhancers	Fetal Heart	heart
3	chr10:18368400-18370000	Enhancers	Brain Substantia Nigra	brain
4	chr10:18368800-18370200	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
5	chr10:18368800-18370400	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
6	chr10:18369000-18371600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
7	chr10:18369000-18374400	Weak transcription	Fetal Lung	lung
8	chr10:18369000-18374600	Weak transcription	Fetal Stomach	stomach
9	chr10:18369600-18370200	Enhancers	Brain Anterior Caudate	brain
10	chr10:18369800-18372200	Weak transcription	Brain Cingulate Gyrus	brain

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Input of quick search could be:

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

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