Variant report

Variant	rs56108413
Chromosome Location	chr19:40437483-40437484
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:15)

rs_ID	r²[population]
rs11878670	0.82[ASN][1000 genomes]
rs11879271	0.83[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11880843	0.82[ASN][1000 genomes]
rs12052060	1.00[ASN][1000 genomes]
rs55673424	0.82[ASN][1000 genomes]
rs55718963	0.82[ASN][1000 genomes]
rs55873814	0.82[ASN][1000 genomes]
rs56040936	0.82[AFR][1000 genomes];0.83[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs7250934	0.82[ASN][1000 genomes]
rs73040535	0.82[ASN][1000 genomes]
rs73040537	0.82[ASN][1000 genomes]
rs73052613	0.84[EUR][1000 genomes]
rs73052616	0.82[AFR][1000 genomes]
rs73052619	0.84[EUR][1000 genomes]
rs73052630	1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2758498	chr19:40227904-40521130	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Strong transcription Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	61 gene(s)	inside rSNPs	diseases
2	esv2758760	chr19:40227904-40521130	Genic enhancers Strong transcription Active TSS Flanking Active TSS Weak transcription Enhancers Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	61 gene(s)	inside rSNPs	diseases
3	nsv428022	chr19:40227904-40521130	Strong transcription Transcr. at gene 5' and 3' Flanking Active TSS Genic enhancers Weak transcription Active TSS ZNF genes & repeats Enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	61 gene(s)	inside rSNPs	diseases
4	nsv510766	chr19:40344356-40453018	Enhancers Weak transcription Active TSS Genic enhancers Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
5	nsv482218	chr19:40353963-40440533	Enhancers Strong transcription Weak transcription Bivalent Enhancer Active TSS Genic enhancers ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
6	nsv917321	chr19:40403192-40694875	Strong transcription Flanking Active TSS Weak transcription ZNF genes & repeats Enhancers Active TSS Genic enhancers Bivalent Enhancer 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	43 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	chr19:40420200-40441800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr19:40430000-40440800	Weak transcription	Primary B cells from cord blood	blood
3	chr19:40433200-40440200	Weak transcription	Rectal Smooth Muscle	rectum
4	chr19:40433400-40438600	Weak transcription	Placenta	Placenta
5	chr19:40434000-40440000	Weak transcription	Stomach Mucosa	stomach
6	chr19:40434000-40440600	Weak transcription	Sigmoid Colon	Sigmoid Colon
7	chr19:40434200-40438600	Weak transcription	Primary T cells fromperipheralblood	blood
8	chr19:40434200-40440000	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
9	chr19:40434200-40440000	Weak transcription	Fetal Stomach	stomach
10	chr19:40434400-40439200	Weak transcription	Primary T helper cells fromperipheralblood	blood
11	chr19:40434600-40440000	Weak transcription	Primary T helper naive cells from peripheral blood	blood
12	chr19:40434600-40440000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
13	chr19:40434800-40439800	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
14	chr19:40434800-40439800	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
15	chr19:40434800-40440000	Weak transcription	Primary T helper cells PMA-I stimulated	--
16	chr19:40435800-40440400	Active TSS	Rectal Mucosa Donor 31	rectum
17	chr19:40435800-40440600	Active TSS	Rectal Mucosa Donor 29	rectum
18	chr19:40435800-40440800	Active TSS	Fetal Intestine Large	intestine
19	chr19:40437000-40438800	Enhancers	Primary T cells from cord blood	blood
20	chr19:40437400-40438800	Weak transcription	Colonic Mucosa	Colon
21	chr19:40437400-40440600	Active TSS	Fetal Intestine Small	intestine

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links