Variant report

Variant	rs6847550
Chromosome Location	chr4:80555364-80555365
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 13 )
Associated
traits (count: 1 )

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

rs_ID	r²[population]
rs11931419	0.91[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11942649	0.93[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs17004012	0.90[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs55969551	0.89[AFR][1000 genomes]
rs58848765	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs59847777	0.94[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6534464	0.93[AFR][1000 genomes];0.91[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs6818380	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6819600	0.92[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7696975	0.89[AFR][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	nsv879506	chr4:80316417-80604625	Active TSS Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers Strong transcription Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
2	nsv1002031	chr4:80459528-80759113	Weak transcription Enhancers Active TSS Genic enhancers Strong transcription Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
3	nsv1005152	chr4:80549659-80814456	Flanking Active TSS Enhancers Weak transcription ZNF genes & repeats Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs6847550	CCNG2	cis	cerebellum	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:80545000-80555400	Weak transcription	HUES48 Cell Line	embryonic stem cell
2	chr4:80553000-80559400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
3	chr4:80553400-80555400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
4	chr4:80553600-80555400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
5	chr4:80555200-80555600	Enhancers	ES-I3 Cell Line	embryonic stem cell
6	chr4:80555200-80555600	Enhancers	HUES6 Cell Line	embryonic stem cell
7	chr4:80555200-80555600	Enhancers	HUES64 Cell Line	embryonic stem cell
8	chr4:80555200-80555600	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
9	chr4:80555200-80555800	Enhancers	Brain Germinal Matrix	brain
10	chr4:80555200-80556000	Enhancers	Fetal Brain Female	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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