Variant report

Variant	rs28579649
Chromosome Location	chr3:196324719-196324720
allele	C/T
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:11)

rs_ID	r²[population]
rs11717827	0.81[ASN][1000 genomes]
rs2086892	0.88[ASN][1000 genomes]
rs2086894	0.81[AFR][1000 genomes]
rs28529075	0.86[ASN][1000 genomes]
rs28548867	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs28664893	0.86[ASN][1000 genomes]
rs35107793	0.86[ASN][1000 genomes]
rs35918545	0.81[ASN][1000 genomes]
rs9826948	0.86[ASN][1000 genomes]
rs9827118	0.86[ASN][1000 genomes]
rs9882393	0.86[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:10 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1003194	chr3:195960270-196342423	Strong transcription Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	64 gene(s)	inside rSNPs	diseases
2	nsv536894	chr3:195960270-196342423	Flanking Active TSS Weak transcription Enhancers Strong transcription Active TSS Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	64 gene(s)	inside rSNPs	diseases
3	nsv1003066	chr3:196098763-196414159	Flanking Active TSS Strong transcription Weak transcription Active TSS Enhancers Bivalent Enhancer Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	55 gene(s)	inside rSNPs	diseases
4	nsv948681	chr3:196148055-197007546	Weak transcription Strong transcription Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Active TSS ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	84 gene(s)	inside rSNPs	diseases
5	nsv1014692	chr3:196242249-196531824	Weak transcription Enhancers Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Strong transcription Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	48 gene(s)	inside rSNPs	diseases
6	nsv878187	chr3:196245603-196554790	Enhancers ZNF genes & repeats Genic enhancers Weak transcription Flanking Active TSS Strong transcription Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	47 gene(s)	inside rSNPs	diseases
7	nsv491864	chr3:196263064-196468533	Weak transcription Enhancers Strong transcription Active TSS Flanking Active TSS ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	43 gene(s)	inside rSNPs	diseases
8	nsv829828	chr3:196268121-196463641	Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS Weak transcription Bivalent Enhancer Active TSS Strong transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	36 gene(s)	inside rSNPs	diseases
9	nsv1010643	chr3:196288064-196788645	Flanking Active TSS Active TSS Enhancers Weak transcription Strong transcription Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	63 gene(s)	inside rSNPs	diseases
10	nsv878188	chr3:196312124-196553867	Weak transcription Genic enhancers Strong transcription Enhancers ZNF genes & repeats Flanking Active TSS Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	35 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:19 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:196306600-196325000	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
2	chr3:196311600-196324800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
3	chr3:196312800-196324800	Weak transcription	Primary T helper cells PMA-I stimulated	--
4	chr3:196314000-196324800	Weak transcription	Primary T cells from cord blood	blood
5	chr3:196314000-196324800	Weak transcription	Primary hematopoietic stem cells	blood
6	chr3:196321600-196324800	Weak transcription	Fetal Thymus	thymus
7	chr3:196323000-196324800	Enhancers	Fetal Stomach	stomach
8	chr3:196323200-196324800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
9	chr3:196323800-196324800	Weak transcription	Primary hematopoietic stem cells short term culture	blood
10	chr3:196323800-196324800	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
11	chr3:196323800-196324800	Weak transcription	Colon Smooth Muscle	Colon
12	chr3:196323800-196324800	Weak transcription	Rectal Smooth Muscle	rectum
13	chr3:196324000-196324800	Weak transcription	Duodenum Smooth Muscle	Duodenum
14	chr3:196324000-196326600	Weak transcription	K562	blood
15	chr3:196324400-196324800	Enhancers	Thymus	Thymus
16	chr3:196324400-196324800	Active TSS	Dnd41	blood
17	chr3:196324600-196324800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
18	chr3:196324600-196325000	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
19	chr3:196324600-196325000	Enhancers	Primary T helper 17 cells PMA-I stimulated	--

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