Variant report

Variant	rs2190320
Chromosome Location	chr7:13783853-13783854
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 7 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:3)

rs_ID	r²[population]
rs4721263	0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6949771	0.81[AMR][1000 genomes];0.81[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6962919	0.99[AMR][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	nsv830909	chr7:13692329-13868294	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
2	nsv887695	chr7:13704951-13819968	Active TSS ZNF genes & repeats Enhancers Weak transcription Flanking Active TSS	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
3	nsv1019873	chr7:13707148-14133367	Bivalent Enhancer Enhancers Weak transcription Active TSS Flanking Active TSS Strong transcription ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
4	nsv1034411	chr7:13743365-13826756	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs2190320	AGR3	cis	cerebellum	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:13781600-13784200	Enhancers	Fetal Brain Male	brain
2	chr7:13782600-13784800	Weak transcription	Fetal Heart	heart
3	chr7:13783000-13784000	Enhancers	HUES48 Cell Line	embryonic stem cell
4	chr7:13783200-13784800	Weak transcription	Colon Smooth Muscle	Colon
5	chr7:13783200-13786400	Weak transcription	Cortex derived primary cultured neurospheres	brain
6	chr7:13783400-13784000	Weak transcription	H1 Cell Line	embryonic stem cell
7	chr7:13783400-13784600	Enhancers	iPS-20b Cell Line	embryonic stem cell
8	chr7:13783600-13786800	Weak transcription	HUES64 Cell Line	embryonic stem cell
9	chr7:13783800-13784000	Enhancers	iPS-15b Cell Line	embryonic stem cell
10	chr7:13783800-13786400	Weak transcription	iPS-18 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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