Variant report

Variant	rs1223535
Chromosome Location	chr6:13153399-13153400
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 16 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:15)

rs_ID	r²[population]
rs10485363	0.80[CEU][hapmap]
rs11755284	0.84[CHB][hapmap]
rs11755663	0.87[CEU][hapmap];0.84[EUR][1000 genomes]
rs11966433	0.94[CEU][hapmap];0.83[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs12206342	0.85[CHB][hapmap]
rs1223532	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs13192887	0.81[CEU][hapmap];0.83[EUR][1000 genomes]
rs13220463	0.81[CEU][hapmap];0.81[EUR][1000 genomes]
rs16873638	1.00[CEU][hapmap];0.82[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs17323391	0.88[CEU][hapmap];0.84[EUR][1000 genomes]
rs2183072	0.82[CEU][hapmap];0.83[EUR][1000 genomes]
rs62385529	0.83[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs6907388	0.81[CEU][hapmap]
rs71562464	0.84[EUR][1000 genomes]
rs746593	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[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:37 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:13142400-13159400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
2	chr6:13146000-13158400	Weak transcription	Primary hematopoietic stem cells short term culture	blood
3	chr6:13146000-13159200	Weak transcription	Primary hematopoietic stem cells	blood
4	chr6:13150000-13153600	Weak transcription	H1 Cell Line	embryonic stem cell
5	chr6:13150000-13175600	Weak transcription	Lung	lung
6	chr6:13152600-13154000	Enhancers	H9 Cell Line	embryonic stem cell
7	chr6:13152600-13154000	Enhancers	HUES48 Cell Line	embryonic stem cell
8	chr6:13152600-13154000	Enhancers	HUES64 Cell Line	embryonic stem cell
9	chr6:13152600-13154000	Enhancers	iPS-15b Cell Line	embryonic stem cell
10	chr6:13152600-13154000	Enhancers	iPS-18 Cell Line	embryonic stem cell
11	chr6:13152600-13154000	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
12	chr6:13152600-13154000	Enhancers	Cortex derived primary cultured neurospheres	brain
13	chr6:13152600-13154000	Enhancers	Fetal Heart	heart
14	chr6:13152800-13153400	Enhancers	Brain Inferior Temporal Lobe	brain
15	chr6:13152800-13153400	Enhancers	Left Ventricle	heart
16	chr6:13152800-13153600	Flanking Active TSS	iPS-20b Cell Line	embryonic stem cell
17	chr6:13152800-13153800	Enhancers	ES-I3 Cell Line	embryonic stem cell
18	chr6:13152800-13153800	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
19	chr6:13152800-13153800	Enhancers	Brain Anterior Caudate	brain
20	chr6:13152800-13154000	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
21	chr6:13153000-13153400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
22	chr6:13153000-13153400	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
23	chr6:13153000-13153400	Enhancers	Brain Angular Gyrus	brain
24	chr6:13153000-13153600	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
25	chr6:13153000-13153600	Enhancers	Brain Cingulate Gyrus	brain
26	chr6:13153000-13153600	Enhancers	Brain Germinal Matrix	brain
27	chr6:13153000-13153600	Enhancers	Brain Hippocampus Middle	brain
28	chr6:13153000-13153600	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
29	chr6:13153000-13153600	Enhancers	Right Ventricle	heart
30	chr6:13153000-13153800	Enhancers	Aorta	Aorta
31	chr6:13153000-13153800	Enhancers	Stomach Smooth Muscle	stomach
32	chr6:13153000-13154000	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
33	chr6:13153000-13154000	Enhancers	HUES6 Cell Line	embryonic stem cell
34	chr6:13153000-13154000	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
35	chr6:13153000-13154000	Enhancers	Brain Substantia Nigra	brain
36	chr6:13153200-13153800	Enhancers	Colon Smooth Muscle	Colon
37	chr6:13153200-13153800	Enhancers	Fetal Brain Male	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links