Variant report

Variant	rs9651103
Chromosome Location	chr1:212878217-212878218
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 22 )
Associated
traits (count: 5 )

rSNPs within LD-proxies of this variant (count:19)

rs_ID	r²[population]
rs10779582	0.83[AMR][1000 genomes];0.84[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11120005	0.93[ASN][1000 genomes]
rs1156058	0.90[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs12239017	0.93[ASN][1000 genomes]
rs1580991	0.93[ASN][1000 genomes]
rs1580992	0.93[ASN][1000 genomes]
rs1605420	0.93[ASN][1000 genomes]
rs28549276	0.91[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs3951343	0.92[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs4548508	0.82[AMR][1000 genomes];0.84[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4951458	0.81[AFR][1000 genomes];0.83[AMR][1000 genomes];0.84[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6540754	0.82[ASN][1000 genomes]
rs6665489	0.93[ASN][1000 genomes]
rs6670373	0.93[ASN][1000 genomes]
rs6678961	0.93[ASN][1000 genomes]
rs6688947	0.96[ASN][1000 genomes]
rs6703982	0.93[ASN][1000 genomes]
rs7549091	0.92[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs7549294	0.92[AMR][1000 genomes];0.94[EUR][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	nsv1013110	chr1:212555764-212948092	Flanking Active TSS Bivalent/Poised TSS Strong transcription Enhancers Bivalent Enhancer Weak transcription ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	81 gene(s)	inside rSNPs	diseases
2	nsv535287	chr1:212555764-212948092	Weak transcription Bivalent Enhancer Flanking Active TSS Enhancers Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Active TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	81 gene(s)	inside rSNPs	diseases
3	nsv549148	chr1:212876902-212962207	Enhancers ZNF genes & repeats Weak transcription Strong transcription Flanking Active TSS Genic enhancers Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	7 gene(s)	inside rSNPs	diseases

mRNA abundance (count:5)

SNP	Gene	Cis/trans	Tissue	Source
rs9651103	SNFT	Cis_1M	lymphoblastoid	RTeQTL
rs9651103	BATF3	cis	Whole Blood	GTEx
rs9651103	LQK1	Cis_1M	lymphoblastoid	RTeQTL
rs9651103	FLVCR1-AS1	cis	lung	GTEx
rs9651103	FLVCR1-AS1	cis	Whole Blood	GTEx

Chromatin state (count:3 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:212877800-212879600	Enhancers	Primary T helper cells PMA-I stimulated	--
2	chr1:212878200-212878400	Enhancers	ES-WA7 Cell Line	embryonic stem cell
3	chr1:212878200-212879400	Enhancers	Primary T helper 17 cells PMA-I stimulated	--

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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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