Variant report

Variant	rs2029228
Chromosome Location	chr3:113659308-113659309
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 21 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:17)

rs_ID	r²[population]
rs13064466	0.83[YRI][hapmap]
rs13069900	0.83[YRI][hapmap]
rs13096290	0.82[YRI][hapmap]
rs1386478	0.82[YRI][hapmap]
rs1963015	0.85[EUR][1000 genomes]
rs2029227	0.81[CEU][hapmap];0.81[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs2134655	0.82[YRI][hapmap]
rs2242316	0.82[YRI][hapmap]
rs3204024	0.80[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs3732786	0.82[CEU][hapmap];0.84[EUR][1000 genomes]
rs3765114	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4682513	0.80[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs6767593	0.80[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs6802486	0.82[CEU][hapmap];0.86[EUR][1000 genomes]
rs7626657	0.85[CEU][hapmap];0.80[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs9826697	0.87[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs9871131	0.80[AMR][1000 genomes];0.84[EUR][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	nsv1013506	chr3:112890608-113680951	Weak transcription Bivalent/Poised TSS Enhancers Strong transcription ZNF genes & repeats Genic enhancers Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	51 gene(s)	inside rSNPs	diseases
2	esv1792060	chr3:113652774-113667160	Flanking Bivalent TSS/Enh Flanking Active TSS Active TSS Weak transcription Enhancers Strong transcription Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
3	esv1794535	chr3:113652774-113667160	Weak transcription Flanking Active TSS Active TSS Bivalent/Poised TSS Enhancers Flanking Bivalent TSS/Enh Strong transcription Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
4	esv1799628	chr3:113652774-113667160	Weak transcription Strong transcription Flanking Active TSS Active TSS Bivalent/Poised TSS Enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	8 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	chr3:113631600-113666200	Weak transcription	Esophagus	oesophagus
2	chr3:113632000-113666000	Weak transcription	Rectal Mucosa Donor 29	rectum
3	chr3:113636200-113666200	Weak transcription	Sigmoid Colon	Sigmoid Colon
4	chr3:113642600-113666000	Weak transcription	Rectal Mucosa Donor 31	rectum
5	chr3:113643000-113666000	Weak transcription	Fetal Intestine Large	intestine
6	chr3:113646600-113660800	Weak transcription	Lung	lung
7	chr3:113647000-113666000	Weak transcription	Primary B cells from peripheral blood	blood
8	chr3:113649400-113663800	Strong transcription	Liver	Liver
9	chr3:113649600-113664200	Strong transcription	Breast Myoepithelial Primary Cells	Breast
10	chr3:113651400-113666000	Weak transcription	Colonic Mucosa	Colon
11	chr3:113653000-113661400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
12	chr3:113654200-113666000	Weak transcription	Fetal Intestine Small	intestine
13	chr3:113654400-113666000	Weak transcription	Pancreas	Pancrea

Quick Search:

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

what's new

Quick links