Variant report

Variant	rs17010565
Chromosome Location	chr12:83450284-83450285
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr12:83448097..83450387-chr12:83473090..83475396,2	K562	blood:
2	chr12:83449205..83451472-chr12:83544040..83546509,2	K562	blood:
3	chr12:83449205..83452014-chr12:83544235..83546509,2	K562	blood:
4	chr12:83443059..83446999-chr12:83447575..83450330,4	K562	blood:

Variant related genes	Relation type
ENSG00000213270	Chromatin interaction

Extended variants
information (count: 21 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:17)

rs_ID	r²[population]
rs10506888	1.00[CEU][hapmap];1.00[CHB][hapmap];0.90[JPT][hapmap];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11115559	0.85[CEU][hapmap];0.84[EUR][1000 genomes]
rs11829960	0.87[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11832231	0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11832789	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs11834840	0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12315590	0.82[EUR][1000 genomes]
rs17010538	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs17010563	1.00[CEU][hapmap];1.00[CHB][hapmap];0.90[JPT][hapmap];0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17010567	1.00[CEU][hapmap];1.00[CHB][hapmap];0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs17010576	0.87[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs17010577	1.00[CEU][hapmap];1.00[CHB][hapmap];0.90[JPT][hapmap];0.82[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17010578	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17010580	1.00[CEU][hapmap];1.00[CHB][hapmap];0.82[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs17010586	1.00[CEU][hapmap];1.00[CHB][hapmap];0.82[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2033576	0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7304787	1.00[CEU][hapmap];1.00[CHB][hapmap];0.90[JPT][hapmap];0.98[EUR][1000 genomes];0.96[ASN][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	nsv521849	chr12:83013783-83991479	Weak transcription ZNF genes & repeats Enhancers Strong transcription Active TSS Flanking Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
2	nsv469490	chr12:83089431-83507269	Enhancers Weak transcription Strong transcription ZNF genes & repeats Genic enhancers Flanking Active TSS Bivalent Enhancer Active TSS	TF binding region CpG island Chromatin interactive region	6 gene(s)	inside rSNPs	diseases
3	nsv559542	chr12:83089431-83507269	Weak transcription Enhancers Flanking Active TSS Strong transcription ZNF genes & repeats Active TSS Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	6 gene(s)	inside rSNPs	diseases
4	nsv559557	chr12:83334204-83453620	ZNF genes & repeats Weak transcription Enhancers Strong transcription Flanking Active TSS Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	n/a

No data

Chromatin state (count:24 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:83419000-83468000	Weak transcription	Fetal Stomach	stomach
2	chr12:83434400-83452200	Weak transcription	Duodenum Smooth Muscle	Duodenum
3	chr12:83436600-83452400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
4	chr12:83436800-83467800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
5	chr12:83437200-83454400	Weak transcription	Colon Smooth Muscle	Colon
6	chr12:83437200-83467800	Weak transcription	Cortex derived primary cultured neurospheres	brain
7	chr12:83438600-83462400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
8	chr12:83438800-83452200	Weak transcription	Fetal Intestine Large	intestine
9	chr12:83443400-83451600	Weak transcription	Fetal Kidney	kidney
10	chr12:83443400-83460400	Weak transcription	HUES64 Cell Line	embryonic stem cell
11	chr12:83443400-83476400	Weak transcription	Fetal Lung	lung
12	chr12:83443800-83452200	Weak transcription	Rectal Mucosa Donor 31	rectum
13	chr12:83444600-83450400	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
14	chr12:83445600-83454400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
15	chr12:83446000-83457800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
16	chr12:83446400-83452200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
17	chr12:83446400-83452600	Weak transcription	Fetal Muscle Trunk	muscle
18	chr12:83446600-83456600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
19	chr12:83447000-83451000	Weak transcription	Brain Inferior Temporal Lobe	brain
20	chr12:83447200-83450400	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
21	chr12:83447200-83454600	Weak transcription	Brain Hippocampus Middle	brain
22	chr12:83449400-83454800	Weak transcription	Brain Substantia Nigra	brain
23	chr12:83449600-83452200	Weak transcription	Primary monocytes fromperipheralblood	blood
24	chr12:83450200-83451400	Strong transcription	Monocytes-CD14+_RO01746	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links