Variant report

Variant	rs3789073
Chromosome Location	chr2:111800680-111800681
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 12 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs1371218	0.99[AFR][1000 genomes]
rs1483532	0.84[CHD][hapmap]
rs1564706	0.98[EUR][1000 genomes]
rs1976058	0.98[EUR][1000 genomes]
rs2306583	1.00[CHB][hapmap];0.84[CHD][hapmap];0.89[ASN][1000 genomes]
rs3789078	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.88[GIH][hapmap];0.93[TSI][hapmap];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs57037141	0.86[ASN][1000 genomes]
rs752833	0.89[YRI][hapmap]
rs7589645	1.00[CHB][hapmap];0.81[ASN][1000 genomes]
rs7590779	0.81[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	nsv874838	chr2:111376870-112046226	Weak transcription Strong transcription ZNF genes & repeats Active TSS Enhancers Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Flanking Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	33 gene(s)	inside rSNPs	diseases
2	nsv874839	chr2:111400934-111868010	Enhancers Active TSS Bivalent Enhancer Flanking Active TSS Weak transcription Strong transcription Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:16 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:111787800-111825400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
2	chr2:111792800-111801600	Weak transcription	Fetal Intestine Large	intestine
3	chr2:111797800-111801400	Weak transcription	Fetal Intestine Small	intestine
4	chr2:111797800-111806600	Weak transcription	Fetal Kidney	kidney
5	chr2:111799600-111804000	Enhancers	Fetal Thymus	thymus
6	chr2:111799600-111804400	Weak transcription	Pancreas	Pancrea
7	chr2:111800000-111800800	Enhancers	Primary neutrophils fromperipheralblood	blood
8	chr2:111800000-111801800	Enhancers	Primary B cells from peripheral blood	blood
9	chr2:111800200-111800800	Enhancers	Spleen	Spleen
10	chr2:111800200-111803600	Enhancers	Primary T cells from cord blood	blood
11	chr2:111800400-111800800	Flanking Active TSS	GM12878-XiMat	blood
12	chr2:111800400-111802000	Enhancers	Primary B cells from cord blood	blood
13	chr2:111800400-111802200	Enhancers	Primary monocytes fromperipheralblood	blood
14	chr2:111800600-111800800	Enhancers	Primary T helper naive cells fromperipheralblood	blood
15	chr2:111800600-111801200	Enhancers	Primary T helper cells PMA-I stimulated	--
16	chr2:111800600-111802200	Enhancers	Monocytes-CD14+_RO01746	blood

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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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