Variant report

Variant	rs12903504
Chromosome Location	chr15:27084115-27084116
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 14 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:10)

rs_ID	r²[population]
rs10438463	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12900670	0.96[AMR][1000 genomes];0.91[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs28711911	0.83[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs7170231	0.84[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs7170237	0.84[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs7495648	0.88[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7496487	0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8036439	0.84[AMR][1000 genomes]
rs8037053	0.83[EUR][1000 genomes]
rs8041106	0.83[AMR][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	nsv530664	chr15:26821078-27296222	ZNF genes & repeats Bivalent Enhancer Weak transcription Active TSS Enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Strong transcription Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
2	nsv1041629	chr15:26919868-27192078	Enhancers Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Active TSS ZNF genes & repeats Strong transcription Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
3	esv1791731	chr15:27059973-27113311	Bivalent Enhancer Enhancers Weak transcription Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
4	esv1823300	chr15:27068434-27116718	Flanking Bivalent TSS/Enh Enhancers Flanking Active TSS Bivalent Enhancer Weak transcription Bivalent/Poised TSS Active TSS Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs12903504	GABRA5	cis	Thyroid	GTEx

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:27083800-27084200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
2	chr15:27083800-27084400	Active TSS	iPS-20b Cell Line	embryonic stem cell
3	chr15:27084000-27084400	Active TSS	ES-I3 Cell Line	embryonic stem cell
4	chr15:27084000-27084400	ZNF genes & repeats	H9 Cell Line	embryonic stem cell
5	chr15:27084000-27084400	Active TSS	HUES48 Cell Line	embryonic stem cell
6	chr15:27084000-27084400	Active TSS	iPS-18 Cell Line	embryonic stem cell
7	chr15:27084000-27084400	Active TSS	iPS DF 19.11 Cell Line	embryonic stem cell
8	chr15:27084000-27084600	Active TSS	HUES6 Cell Line	embryonic stem cell
9	chr15:27084000-27084600	Active TSS	HUES64 Cell Line	embryonic stem cell
10	chr15:27084000-27084600	Active TSS	iPS-15b Cell Line	embryonic stem cell

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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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