Variant report

Variant	rs12906792
Chromosome Location	chr15:53496359-53496360
allele	C/T
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:15)

rs_ID	r²[population]
rs1189635	1.00[EUR][1000 genomes]
rs2681973	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28711244	1.00[EUR][1000 genomes]
rs485320	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs492072	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs517547	0.85[AFR][1000 genomes]
rs521413	0.91[AFR][1000 genomes]
rs549611	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs554704	0.83[YRI][hapmap]
rs59175829	1.00[EUR][1000 genomes]
rs59373856	0.83[EUR][1000 genomes]
rs689622	0.94[AFR][1000 genomes]
rs690585	0.86[AFR][1000 genomes]
rs74013417	1.00[EUR][1000 genomes]
rs8033685	0.91[AFR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3343986	chr15:53284440-53571936	Active TSS Weak transcription Enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
2	nsv1037630	chr15:53324645-53708925	Weak transcription Enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Active TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
3	nsv1051634	chr15:53459129-53565627	Enhancers Active TSS Bivalent Enhancer Weak transcription Bivalent/Poised TSS Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
4	esv3385784	chr15:53492461-53521900	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

Chromatin state (count:23 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:53493200-53497200	Enhancers	Dnd41	blood
2	chr15:53493400-53496800	Enhancers	Primary hematopoietic stem cells short term culture	blood
3	chr15:53493400-53497000	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
4	chr15:53493800-53496600	Enhancers	Fetal Thymus	thymus
5	chr15:53493800-53496600	Enhancers	Thymus	Thymus
6	chr15:53493800-53497400	Enhancers	Primary hematopoietic stem cells	blood
7	chr15:53495000-53496400	Enhancers	ES-I3 Cell Line	embryonic stem cell
8	chr15:53495000-53496400	Enhancers	H1 Cell Line	embryonic stem cell
9	chr15:53495000-53496400	Enhancers	iPS-20b Cell Line	embryonic stem cell
10	chr15:53495000-53496400	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
11	chr15:53495000-53498800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
12	chr15:53495200-53496400	Enhancers	HUES48 Cell Line	embryonic stem cell
13	chr15:53495200-53496400	Enhancers	iPS-18 Cell Line	embryonic stem cell
14	chr15:53495200-53496600	Enhancers	Psoas Muscle	Psoas
15	chr15:53495200-53503000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
16	chr15:53495800-53496400	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
17	chr15:53495800-53496600	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
18	chr15:53495800-53496600	Enhancers	HepG2	liver
19	chr15:53496000-53496400	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
20	chr15:53496000-53496600	Enhancers	Cortex derived primary cultured neurospheres	brain
21	chr15:53496000-53500800	Weak transcription	Liver	Liver
22	chr15:53496200-53497000	Enhancers	Skeletal Muscle Female	skeletal muscle
23	chr15:53496200-53497200	Enhancers	Skeletal Muscle Male	skeletal muscle

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links