Variant report

Variant	rs16867467
Chromosome Location	chr2:182544889-182544890
allele	C/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	SUZ12	chr2:182543491-182550280	NT2-D1	testis:	n/a	n/a

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr2:182542601..182545361-chr2:182546496..182548838,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000234595	TF binding region
ENSG00000234595	Chromatin interaction

Extended variants
information (count: 22 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:19)

rs_ID	r²[population]
rs12052558	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12053195	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1441147	0.88[EUR][1000 genomes]
rs16841649	1.00[YRI][hapmap]
rs16867465	1.00[CEU][hapmap];0.87[CHB][hapmap];1.00[JPT][hapmap];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs16867472	1.00[YRI][hapmap]
rs16867474	1.00[YRI][hapmap]
rs2696344	0.82[ASN][1000 genomes]
rs2696348	0.84[ASN][1000 genomes]
rs2696352	0.84[ASN][1000 genomes]
rs3755022	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs56114633	0.88[EUR][1000 genomes]
rs6756950	0.91[CEU][hapmap]
rs72885393	0.88[EUR][1000 genomes]
rs72885396	0.85[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs72889320	0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs72889322	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7420169	0.91[CEU][hapmap];0.89[CHB][hapmap];0.83[ASN][1000 genomes]
rs866725	0.84[CEU][hapmap]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1005870	chr2:181968637-182921439	Enhancers Strong transcription Weak transcription Bivalent/Poised TSS Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	39 gene(s)	inside rSNPs	diseases
2	nsv536063	chr2:181968637-182921439	Enhancers Active TSS Weak transcription Strong transcription Bivalent/Poised TSS Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	39 gene(s)	inside rSNPs	diseases
3	nsv834477	chr2:182438121-182593527	Bivalent Enhancer Flanking Bivalent TSS/Enh Enhancers ZNF genes & repeats Bivalent/Poised TSS Flanking Active TSS Active TSS Weak transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 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	chr2:182542400-182545000	Bivalent Enhancer	Ganglion Eminence derived primary cultured neurospheres	brain
2	chr2:182542400-182545400	Bivalent/Poised TSS	Brain Hippocampus Middle	brain
3	chr2:182542400-182546200	Bivalent/Poised TSS	Brain Inferior Temporal Lobe	brain
4	chr2:182542600-182545200	Bivalent Enhancer	Cortex derived primary cultured neurospheres	brain
5	chr2:182543000-182545000	Bivalent Enhancer	iPS-18 Cell Line	embryonic stem cell
6	chr2:182543000-182545600	Bivalent/Poised TSS	Fetal Brain Female	brain
7	chr2:182543200-182545000	Bivalent/Poised TSS	H9 Derived Neuron Cultured Cells	ES cell derived
8	chr2:182543600-182550200	Active TSS	Pancreatic Islets	Pancreatic Islet
9	chr2:182544000-182545000	Bivalent/Poised TSS	Fetal Brain Male	brain
10	chr2:182544000-182545600	Bivalent/Poised TSS	Brain Angular Gyrus	brain
11	chr2:182544200-182545600	Bivalent/Poised TSS	Brain Dorsolateral Prefrontal Cortex	brain
12	chr2:182544400-182545000	Bivalent Enhancer	iPS DF 19.11 Cell Line	embryonic stem cell
13	chr2:182544400-182545200	Bivalent Enhancer	Primary T helper naive cells fromperipheralblood	blood
14	chr2:182544400-182545200	Bivalent Enhancer	Foreskin Fibroblast Primary Cells skin02	Skin
15	chr2:182544600-182545000	Bivalent Enhancer	HUES48 Cell Line	embryonic stem cell
16	chr2:182544600-182545000	Bivalent Enhancer	HUES6 Cell Line	embryonic stem cell
17	chr2:182544600-182545000	Bivalent Enhancer	iPS-15b Cell Line	embryonic stem cell
18	chr2:182544600-182545200	Bivalent Enhancer	Brain Substantia Nigra	brain
19	chr2:182544800-182545000	Bivalent Enhancer	H1 Cell Line	embryonic stem cell
20	chr2:182544800-182545600	Bivalent Enhancer	ES-UCSF4 Cell Line	embryonic stem cell
21	chr2:182544800-182545600	Bivalent Enhancer	Primary T helper cells PMA-I stimulated	--

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links