Variant report

Variant	rs7617717
Chromosome Location	chr3:56084367-56084368
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 17 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:15)

rs_ID	r²[population]
rs1023882	0.81[AFR][1000 genomes]
rs1349616	1.00[CEU][hapmap]
rs1379713	0.81[AFR][1000 genomes]
rs1485671	0.95[EUR][1000 genomes]
rs1519027	0.86[EUR][1000 genomes]
rs1519032	1.00[CEU][hapmap];0.94[YRI][hapmap];0.97[AFR][1000 genomes];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1949478	0.97[AFR][1000 genomes];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2046450	1.00[CEU][hapmap]
rs2316457	0.98[AFR][1000 genomes];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2316459	0.81[EUR][1000 genomes]
rs2873169	1.00[CEU][hapmap]
rs4974116	1.00[AFR][1000 genomes];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4974117	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs6445766	0.95[EUR][1000 genomes]
rs9855895	0.98[AFR][1000 genomes];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1013063	chr3:55835413-56173713	Weak transcription Enhancers Active TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	5 gene(s)	inside rSNPs	diseases
2	nsv1009709	chr3:56000827-56294945	Enhancers Weak transcription ZNF genes & repeats Active TSS Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:13 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:56071000-56084600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
2	chr3:56076400-56086400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
3	chr3:56076600-56086200	Weak transcription	H1 Cell Line	embryonic stem cell
4	chr3:56078000-56086200	Weak transcription	iPS-20b Cell Line	embryonic stem cell
5	chr3:56079600-56086200	Weak transcription	HUES48 Cell Line	embryonic stem cell
6	chr3:56081400-56088600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
7	chr3:56082400-56086600	Weak transcription	Fetal Kidney	kidney
8	chr3:56082600-56085200	Enhancers	Ovary	ovary
9	chr3:56083000-56085400	Weak transcription	HUES64 Cell Line	embryonic stem cell
10	chr3:56083200-56086200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
11	chr3:56083200-56086200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
12	chr3:56083400-56086200	Weak transcription	HUES6 Cell Line	embryonic stem cell
13	chr3:56084000-56084800	Enhancers	Rectal Mucosa Donor 31	rectum

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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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