Variant report

Variant	rs2384686
Chromosome Location	chr19:55837531-55837532
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr19:55834572..55838022-chr19:55847724..55851799,4	K562	blood:
2	chr19:55837505..55841740-chr19:55848603..55850445,4	MCF-7	breast:
3	chr19:55834785..55837569-chr19:55917820..55920717,2	K562	blood:
4	chr19:55834572..55838662-chr19:55847214..55851799,6	K562	blood:
5	chr19:55790334..55792779-chr19:55835222..55838188,2	K562	blood:

Variant related genes	Relation type
ENSG00000108106	Chromatin interaction
ENSG00000133265	Chromatin interaction
ENSG00000267531	Chromatin interaction
ENSG00000133247	Chromatin interaction

Extended variants
information (count: 37 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:29)

rs_ID	r²[population]
rs10401201	0.97[ASN][1000 genomes]
rs10411773	0.97[ASN][1000 genomes]
rs10412726	0.97[ASN][1000 genomes]
rs10420693	0.80[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10425848	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11084393	0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1109368	0.82[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11668309	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11668344	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1172821	0.83[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs1172822	0.86[AMR][1000 genomes];0.83[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11882930	0.97[ASN][1000 genomes]
rs2384687	0.81[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2384688	0.97[ASN][1000 genomes]
rs2384689	0.97[ASN][1000 genomes]
rs2384690	0.80[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2384691	0.97[ASN][1000 genomes]
rs28875253	0.80[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs34962991	0.87[AMR][1000 genomes];0.91[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs35515212	0.82[AMR][1000 genomes];0.81[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4806659	0.97[ASN][1000 genomes]
rs4806660	0.83[AMR][1000 genomes];0.83[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4806661	0.81[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs734518	0.97[ASN][1000 genomes]
rs7508682	0.95[ASN][1000 genomes]
rs8107664	0.81[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs897796	0.81[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs897797	0.93[ASN][1000 genomes]
rs897798	1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv1816335	chr19:55683977-55901099	Strong transcription Genic enhancers Weak transcription Flanking Bivalent TSS/Enh Enhancers Flanking Active TSS Active TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	119 gene(s)	inside rSNPs	diseases
2	nsv1065760	chr19:55721521-55929740	Weak transcription Active TSS Enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Genic enhancers Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	212 gene(s)	inside rSNPs	diseases
3	nsv912455	chr19:55725410-55879872	Enhancers Flanking Active TSS Weak transcription Strong transcription Bivalent/Poised TSS Genic enhancers Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	59 gene(s)	inside rSNPs	diseases
4	nsv912456	chr19:55725410-55925500	Weak transcription Active TSS Bivalent Enhancer Enhancers Strong transcription Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	212 gene(s)	inside rSNPs	diseases
5	nsv912457	chr19:55725410-56019597	Weak transcription Enhancers Strong transcription Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	228 gene(s)	inside rSNPs	diseases
6	nsv912459	chr19:55791380-55845386	Flanking Active TSS Enhancers Strong transcription Weak transcription Genic enhancers Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	24 gene(s)	inside rSNPs	diseases
7	nsv432086	chr19:55807586-56050844	Weak transcription Bivalent Enhancer Genic enhancers Enhancers Strong transcription Active TSS ZNF genes & repeats Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	220 gene(s)	inside rSNPs	diseases
8	nsv912460	chr19:55814881-55897327	Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Enhancers Bivalent/Poised TSS ZNF genes & repeats Strong transcription Flanking Active TSS Genic enhancers Weak transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	99 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	chr19:55813600-55850000	Weak transcription	Right Atrium	heart
2	chr19:55820800-55839000	Weak transcription	Placenta Amnion	Placenta Amnion
3	chr19:55832400-55838600	Enhancers	Primary neutrophils fromperipheralblood	blood
4	chr19:55834600-55838000	Weak transcription	Hela-S3	cervix
5	chr19:55834600-55838800	Weak transcription	Fetal Intestine Large	intestine
6	chr19:55834600-55839000	Weak transcription	A549	lung
7	chr19:55834600-55839200	Weak transcription	Stomach Mucosa	stomach
8	chr19:55834800-55837800	Weak transcription	HepG2	liver
9	chr19:55835000-55838000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
10	chr19:55835400-55838000	Enhancers	Primary hematopoietic stem cells	blood
11	chr19:55836600-55838200	Enhancers	Adipose Nuclei	Adipose
12	chr19:55836800-55838000	Weak transcription	Fetal Intestine Small	intestine
13	chr19:55836800-55838200	Enhancers	Primary hematopoietic stem cells short term culture	blood
14	chr19:55836800-55838200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
15	chr19:55836800-55839800	Enhancers	Primary monocytes fromperipheralblood	blood
16	chr19:55836800-55848400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
17	chr19:55837000-55838600	Weak transcription	NHEK	skin
18	chr19:55837400-55837600	Enhancers	Monocytes-CD14+_RO01746	blood
19	chr19:55837400-55839000	Weak transcription	K562	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links