Variant report

Variant	rs56215540
Chromosome Location	chr17:33839904-33839905
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 16 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:12)

rs_ID	r²[population]
rs57784242	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs58238174	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs58299705	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs58847336	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs59005988	0.92[AFR][1000 genomes]
rs59274713	1.00[AMR][1000 genomes]
rs59474125	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs60495186	1.00[AMR][1000 genomes]
rs60849950	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73989732	0.96[AFR][1000 genomes]
rs73992829	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73992830	0.84[AFR][1000 genomes];1.00[AMR][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	nsv1055936	chr17:33327166-33884184	Strong transcription Weak transcription Flanking Active TSS Bivalent/Poised TSS Enhancers Genic enhancers Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	112 gene(s)	inside rSNPs	diseases
2	nsv543317	chr17:33327166-33884184	Active TSS Weak transcription Enhancers Flanking Active TSS Strong transcription Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	112 gene(s)	inside rSNPs	diseases
3	nsv534371	chr17:33456878-34094068	Strong transcription Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	137 gene(s)	inside rSNPs	diseases
4	nsv960581	chr17:33827264-33841554	Strong transcription Weak transcription Genic enhancers Enhancers ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS	TF binding region Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:21 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr17:33827000-33840000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
2	chr17:33835400-33849600	Weak transcription	Spleen	Spleen
3	chr17:33836400-33843800	Strong transcription	Dnd41	blood
4	chr17:33837600-33840000	Weak transcription	GM12878-XiMat	blood
5	chr17:33837600-33840400	Weak transcription	Primary T cells from cord blood	blood
6	chr17:33837800-33840000	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
7	chr17:33837800-33846800	Weak transcription	Sigmoid Colon	Sigmoid Colon
8	chr17:33838000-33840000	Weak transcription	Primary T helper cells fromperipheralblood	blood
9	chr17:33838000-33841600	Weak transcription	Duodenum Mucosa	Duodenum
10	chr17:33838400-33840400	Genic enhancers	Primary Natural Killer cells fromperipheralblood	blood
11	chr17:33838800-33841000	Weak transcription	Fetal Lung	lung
12	chr17:33839000-33840000	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
13	chr17:33839000-33841800	Genic enhancers	Primary T helper naive cells from peripheral blood	blood
14	chr17:33839200-33840000	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
15	chr17:33839800-33840000	Strong transcription	Primary T helper naive cells fromperipheralblood	blood
16	chr17:33839800-33840400	Genic enhancers	Primary T cells fromperipheralblood	blood
17	chr17:33839800-33840600	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
18	chr17:33839800-33840800	Genic enhancers	Primary T regulatory cells fromperipheralblood	blood
19	chr17:33839800-33841200	Strong transcription	Primary T helper cells PMA-I stimulated	--
20	chr17:33839800-33841800	Genic enhancers	Primary T helper memory cells from peripheral blood 1	blood
21	chr17:33839800-33842200	Genic enhancers	Primary T killer naive cells fromperipheralblood	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links