Variant report

Variant	rs7205270
Chromosome Location	chr16:12520199-12520200
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr16:12518273..12521008-chr16:12521973..12524305,2	MCF-7	breast:

Extended variants
information (count: 20 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:10)

rs_ID	r²[population]
rs11647127	0.82[ASN][1000 genomes]
rs12922243	0.84[ASN][1000 genomes]
rs12923656	0.93[AMR][1000 genomes];0.83[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs12932170	0.82[ASN][1000 genomes]
rs2111225	0.84[EUR][1000 genomes]
rs4781203	1.00[ASW][hapmap]
rs6498291	0.83[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs7201310	0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs9929233	0.90[AMR][1000 genomes];0.81[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs9930778	0.87[AMR][1000 genomes];0.84[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:10 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1043096	chr16:12013915-12840769	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	36 gene(s)	inside rSNPs	diseases
2	nsv457411	chr16:12363304-12520199	Strong transcription Weak transcription Enhancers Flanking Active TSS Genic enhancers Active TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
3	nsv571462	chr16:12363304-12520199	Enhancers Weak transcription Strong transcription Transcr. at gene 5' and 3' Flanking Active TSS Genic enhancers ZNF genes & repeats Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
4	nsv571463	chr16:12367791-12783535	Enhancers Weak transcription Strong transcription Flanking Active TSS ZNF genes & repeats Genic enhancers Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
5	nsv1736	chr16:12477807-12522707	Weak transcription Enhancers Genic enhancers Strong transcription Flanking Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
6	nsv1051242	chr16:12482972-12897243	Weak transcription Enhancers Genic enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
7	nsv542749	chr16:12482972-12897243	Weak transcription Enhancers ZNF genes & repeats Strong transcription Flanking Active TSS Active TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
8	nsv520000	chr16:12513797-12523161	Weak transcription Strong transcription Enhancers Genic enhancers Flanking Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
9	nsv1035581	chr16:12516946-12863700	ZNF genes & repeats Weak transcription Enhancers Genic enhancers Strong transcription Bivalent Enhancer Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
10	nsv1036612	chr16:12518604-12565232	Enhancers Weak transcription Flanking Active TSS Strong transcription ZNF genes & repeats Genic enhancers Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs7205270	PARN	cis	cerebellum	SCAN

Chromatin state (count:61 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr16:12476000-12531600	Weak transcription	Right Ventricle	heart
2	chr16:12497800-12539800	Weak transcription	Left Ventricle	heart
3	chr16:12498000-12541200	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
4	chr16:12498400-12523200	Weak transcription	Brain Inferior Temporal Lobe	brain
5	chr16:12498400-12523600	Weak transcription	Skeletal Muscle Male	skeletal muscle
6	chr16:12498400-12523800	Weak transcription	Sigmoid Colon	Sigmoid Colon
7	chr16:12498400-12564600	Weak transcription	Esophagus	oesophagus
8	chr16:12498800-12523800	Weak transcription	Primary T cells fromperipheralblood	blood
9	chr16:12499400-12527000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
10	chr16:12506200-12529600	Weak transcription	Gastric	stomach
11	chr16:12507600-12527600	Weak transcription	GM12878-XiMat	blood
12	chr16:12508800-12523200	Weak transcription	Primary hematopoietic stem cells	blood
13	chr16:12510200-12523000	Weak transcription	Primary hematopoietic stem cells short term culture	blood
14	chr16:12511400-12552000	Weak transcription	Lung	lung
15	chr16:12511600-12527600	Weak transcription	Spleen	Spleen
16	chr16:12513200-12536600	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
17	chr16:12513600-12527600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
18	chr16:12514400-12526800	Weak transcription	Brain Angular Gyrus	brain
19	chr16:12514800-12529600	Weak transcription	Fetal Brain Female	brain
20	chr16:12516000-12522600	Weak transcription	Primary T cells from cord blood	blood
21	chr16:12516000-12523200	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
22	chr16:12517000-12550800	Weak transcription	Primary monocytes fromperipheralblood	blood
23	chr16:12517400-12537000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
24	chr16:12517400-12537000	Weak transcription	Aorta	Aorta
25	chr16:12517600-12531600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
26	chr16:12517800-12520200	Enhancers	Breast Myoepithelial Primary Cells	Breast
27	chr16:12518000-12521400	Weak transcription	Fetal Stomach	stomach
28	chr16:12518000-12527200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
29	chr16:12518400-12537000	Weak transcription	Monocytes-CD14+_RO01746	blood
30	chr16:12518600-12520400	Enhancers	Fetal Intestine Large	intestine
31	chr16:12518800-12520400	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
32	chr16:12518800-12520400	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
33	chr16:12518800-12520400	Enhancers	Ovary	ovary
34	chr16:12519000-12520400	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
35	chr16:12519000-12520400	Enhancers	HSMMtube	muscle
36	chr16:12519200-12520200	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
37	chr16:12519200-12520400	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
38	chr16:12519200-12520400	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
39	chr16:12519200-12520400	Enhancers	A549	lung
40	chr16:12519400-12520200	Enhancers	Colon Smooth Muscle	Colon
41	chr16:12519400-12520400	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
42	chr16:12519600-12520200	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
43	chr16:12519600-12520200	Enhancers	Brain Anterior Caudate	brain
44	chr16:12519600-12520200	Enhancers	Placenta Amnion	Placenta Amnion
45	chr16:12519600-12520400	Enhancers	Brain Hippocampus Middle	brain
46	chr16:12519600-12520400	Enhancers	Brain Substantia Nigra	brain
47	chr16:12519600-12520400	Enhancers	Fetal Muscle Leg	muscle
48	chr16:12519600-12520400	Enhancers	Rectal Smooth Muscle	rectum
49	chr16:12519600-12521400	Weak transcription	Primary B cells from cord blood	blood
50	chr16:12519600-12525600	Weak transcription	Primary B cells from peripheral blood	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links