Variant report

Variant	rs9855679
Chromosome Location	chr2:136271879-136271880
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	SETDB1	chr2:136271876-136272289	U2OS	brain:	n/a	n/a

Variant related genes	Relation type
ENSG00000235651	TF binding region

Extended variants
information (count: 29 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:24)

rs_ID	r²[population]
rs10212178	0.82[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs10936318	0.82[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs10936319	0.83[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs11917929	0.85[ASN][1000 genomes]
rs12152310	0.82[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs12152484	0.82[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs12494878	0.86[ASN][1000 genomes]
rs1425609	0.82[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs28898349	0.82[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs34012392	0.82[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs4099484	0.87[ASN][1000 genomes]
rs4476530	0.87[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs4510403	0.84[AFR][1000 genomes];0.87[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs62396422	0.85[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs7355972	0.87[ASN][1000 genomes]
rs9290153	0.85[ASN][1000 genomes]
rs9820405	0.87[ASN][1000 genomes]
rs9830442	0.82[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs9836765	0.87[ASN][1000 genomes]
rs9845104	0.87[ASN][1000 genomes]
rs9851215	0.87[ASN][1000 genomes]
rs9865699	0.87[ASN][1000 genomes]
rs9873059	0.91[AMR][1000 genomes];0.80[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs9884105	0.82[AMR][1000 genomes];0.87[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv916931	chr2:135707847-136369388	Enhancers Weak transcription Strong transcription Bivalent Enhancer ZNF genes & repeats Flanking Active TSS Genic enhancers Active TSS 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	21 gene(s)	inside rSNPs	diseases
2	esv34026	chr2:136049982-136537952	Weak transcription Enhancers Strong transcription ZNF genes & repeats Active TSS Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	309 gene(s)	inside rSNPs	diseases
3	esv1803351	chr2:136080822-136370954	Enhancers ZNF genes & repeats Weak transcription Strong transcription Active TSS Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
4	nsv1014238	chr2:136258388-136391449	Weak transcription Strong transcription Enhancers Active TSS ZNF genes & repeats Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
5	esv2830371	chr2:136261798-136394456	Weak transcription Enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Active TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	15 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	chr2:136241400-136281200	Weak transcription	Skeletal Muscle Female	skeletal muscle
2	chr2:136243200-136275000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
3	chr2:136248600-136279200	Weak transcription	NH-A	brain
4	chr2:136248800-136275800	Weak transcription	Fetal Kidney	kidney
5	chr2:136257800-136279200	Weak transcription	HMEC	breast
6	chr2:136257800-136287200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
7	chr2:136258000-136281800	Weak transcription	Placenta Amnion	Placenta Amnion
8	chr2:136259400-136272200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
9	chr2:136259600-136275200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
10	chr2:136261600-136275400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
11	chr2:136269400-136275800	Weak transcription	Thymus	Thymus
12	chr2:136269400-136276000	Weak transcription	NHEK	skin
13	chr2:136269600-136272600	Weak transcription	Primary hematopoietic stem cells short term culture	blood
14	chr2:136269600-136275800	Weak transcription	Pancreas	Pancrea
15	chr2:136269600-136279000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
16	chr2:136269800-136287000	Weak transcription	Muscle Satellite Cultured Cells	--
17	chr2:136271000-136275600	Weak transcription	A549	lung
18	chr2:136271000-136275800	Weak transcription	K562	blood
19	chr2:136271200-136285600	Weak transcription	HepG2	liver

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links