Variant report

Variant	rs1223533
Chromosome Location	chr6:13149785-13149786
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 19 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:18)

rs_ID	r²[population]
rs1223509	1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs1223514	0.97[ASN][1000 genomes]
rs1223515	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs1223516	0.97[ASN][1000 genomes]
rs1223517	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs1223518	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.90[JPT][hapmap];0.97[ASN][1000 genomes]
rs1223522	1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs1223523	1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs1223524	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs1223525	1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs1223528	1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs1223530	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1223536	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs1223537	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs1753554	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs1753555	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs1753562	0.92[ASN][1000 genomes]
rs1937769	0.84[CHB][hapmap];0.90[ASN][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv600992	chr6:12961922-13218549	Weak transcription Enhancers Bivalent Enhancer Strong transcription Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	9 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:25 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:13132800-13153000	Weak transcription	Aorta	Aorta
2	chr6:13142400-13159400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
3	chr6:13146000-13158400	Weak transcription	Primary hematopoietic stem cells short term culture	blood
4	chr6:13146000-13159200	Weak transcription	Primary hematopoietic stem cells	blood
5	chr6:13146400-13152600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
6	chr6:13146400-13152800	Weak transcription	Left Ventricle	heart
7	chr6:13147200-13152600	Weak transcription	Fetal Heart	heart
8	chr6:13147400-13153000	Weak transcription	Brain Cingulate Gyrus	brain
9	chr6:13147800-13152600	Weak transcription	Cortex derived primary cultured neurospheres	brain
10	chr6:13148000-13153000	Weak transcription	Brain Angular Gyrus	brain
11	chr6:13148800-13150200	Enhancers	iPS-18 Cell Line	embryonic stem cell
12	chr6:13149000-13149800	Enhancers	HUES64 Cell Line	embryonic stem cell
13	chr6:13149000-13150000	Enhancers	HUES6 Cell Line	embryonic stem cell
14	chr6:13149000-13150000	Enhancers	iPS-15b Cell Line	embryonic stem cell
15	chr6:13149200-13149800	Enhancers	iPS-20b Cell Line	embryonic stem cell
16	chr6:13149200-13150000	Enhancers	HUES48 Cell Line	embryonic stem cell
17	chr6:13149200-13150000	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
18	chr6:13149400-13149800	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
19	chr6:13149400-13149800	Enhancers	Brain Anterior Caudate	brain
20	chr6:13149400-13150000	Enhancers	ES-I3 Cell Line	embryonic stem cell
21	chr6:13149400-13150000	Enhancers	H1 Cell Line	embryonic stem cell
22	chr6:13149400-13150000	Enhancers	H9 Cell Line	embryonic stem cell
23	chr6:13149600-13150000	Enhancers	Right Ventricle	heart
24	chr6:13149600-13150200	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
25	chr6:13149600-13153000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links