Variant report

Variant	rs7628577
Chromosome Location	chr3:56022359-56022360
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 13 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:11)

rs_ID	r²[population]
rs12487286	0.94[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1379715	0.94[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1379717	0.84[AMR][1000 genomes];0.96[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2034917	0.80[EUR][1000 genomes]
rs3736506	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3817370	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6773433	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6782638	0.83[AMR][1000 genomes];0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs732255	0.87[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs7620775	0.95[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7650821	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][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:18 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:56003800-56023000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
2	chr3:56020600-56023600	Enhancers	Ovary	ovary
3	chr3:56021400-56022400	Weak transcription	HUES6 Cell Line	embryonic stem cell
4	chr3:56021400-56022800	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
5	chr3:56021400-56023000	Weak transcription	HUES48 Cell Line	embryonic stem cell
6	chr3:56021400-56023000	Weak transcription	HUES64 Cell Line	embryonic stem cell
7	chr3:56021400-56028200	Weak transcription	iPS-20b Cell Line	embryonic stem cell
8	chr3:56021400-56034800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
9	chr3:56021600-56023000	Weak transcription	H1 Cell Line	embryonic stem cell
10	chr3:56021600-56023000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
11	chr3:56021600-56023400	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
12	chr3:56022000-56023600	Enhancers	iPS-18 Cell Line	embryonic stem cell
13	chr3:56022200-56022400	Enhancers	Fetal Muscle Trunk	muscle
14	chr3:56022200-56022400	Enhancers	Pancreas	Pancrea
15	chr3:56022200-56022600	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
16	chr3:56022200-56023600	Enhancers	Fetal Adrenal Gland	Adrenal Gland
17	chr3:56022200-56023600	Enhancers	Fetal Muscle Leg	muscle
18	chr3:56022200-56023800	Enhancers	Fetal Stomach	stomach

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dbSNP/dbVar ID: rs12345 /nsv7879
a single nucleotide as 0-based coordinates: chr1:12345
chromosomal regions: chr1:12345-34567

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