Variant report

Variant	rs10507945
Chromosome Location	chr13:85509312-85509313
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 31 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:20)

rs_ID	r²[population]
rs10161787	0.83[ASN][1000 genomes]
rs11843860	0.83[ASN][1000 genomes]
rs17078797	0.91[AMR][1000 genomes];0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs17078808	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72632133	0.87[AMR][1000 genomes];0.91[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs72632135	0.92[AFR][1000 genomes];0.91[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs72632168	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72632173	1.00[ASN][1000 genomes]
rs72632177	0.83[ASN][1000 genomes]
rs7338404	0.87[AMR][1000 genomes];0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7981357	0.90[ASN][1000 genomes]
rs7982343	0.83[ASN][1000 genomes]
rs7988117	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8000774	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8001849	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs8002011	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9593956	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9593958	1.00[ASN][1000 genomes]
rs9593959	0.83[ASN][1000 genomes]
rs9602595	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:11 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv949402	chr13:84675752-85606846	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Strong transcription Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
2	nsv900702	chr13:85276978-85605946	Weak transcription Enhancers Active TSS ZNF genes & repeats Flanking Active TSS Bivalent/Poised TSS	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
3	nsv900703	chr13:85337948-85582307	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent/Poised TSS	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
4	nsv832667	chr13:85422787-85557377	Flanking Active TSS Enhancers Weak transcription Active TSS ZNF genes & repeats	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
5	nsv1041062	chr13:85457391-85531111	Weak transcription Enhancers Active TSS Flanking Active TSS	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
6	nsv900704	chr13:85478855-85651739	Enhancers Active TSS ZNF genes & repeats Flanking Active TSS Weak transcription	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
7	nsv562562	chr13:85482828-85538474	Flanking Active TSS Enhancers Active TSS Weak transcription	Chromatin interactive region	n/a	inside rSNPs	diseases
8	nsv471161	chr13:85497445-85628777	Enhancers Active TSS ZNF genes & repeats Weak transcription Flanking Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
9	nsv430595	chr13:85499399-85566699	Enhancers Weak transcription Active TSS Flanking Active TSS	n/a	n/a	inside rSNPs	diseases
10	nsv916866	chr13:85505771-86241562	Active TSS Enhancers Genic enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Strong transcription Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
11	nsv900705	chr13:85505994-85598986	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats	n/a	n/a	inside rSNPs	diseases

No data

Chromatin state (count:31 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:85499800-85526600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr13:85508400-85516000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
3	chr13:85508800-85509400	Active TSS	Stomach Smooth Muscle	stomach
4	chr13:85508800-85509600	Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
5	chr13:85508800-85509600	Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
6	chr13:85508800-85509800	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
7	chr13:85509000-85509400	Active TSS	IMR90 fetal lung fibroblasts Cell Line	lung
8	chr13:85509000-85509400	Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
9	chr13:85509000-85509400	Active TSS	Primary B cells from cord blood	blood
10	chr13:85509000-85509400	Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
11	chr13:85509000-85509400	Active TSS	Foreskin Keratinocyte Primary Cells skin02	Skin
12	chr13:85509000-85509400	Active TSS	Brain Substantia Nigra	brain
13	chr13:85509000-85509400	Active TSS	Duodenum Smooth Muscle	Duodenum
14	chr13:85509000-85509400	Active TSS	Fetal Lung	lung
15	chr13:85509000-85509400	Active TSS	Right Atrium	heart
16	chr13:85509000-85509400	Active TSS	Monocytes-CD14+_RO01746	blood
17	chr13:85509000-85509400	Active TSS	NHEK	skin
18	chr13:85509000-85509600	Active TSS	Primary hematopoietic stem cells	blood
19	chr13:85509000-85509600	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Female	--
20	chr13:85509000-85509600	Active TSS	Duodenum Mucosa	Duodenum
21	chr13:85509000-85509600	Active TSS	A549	lung
22	chr13:85509000-85509600	Active TSS	NHLF	lung
23	chr13:85509200-85509400	Flanking Active TSS	Primary hematopoietic stem cells short term culture	blood
24	chr13:85509200-85509400	Flanking Active TSS	Foreskin Keratinocyte Primary Cells skin03	Skin
25	chr13:85509200-85509400	Flanking Active TSS	Foreskin Melanocyte Primary Cells skin03	Skin
26	chr13:85509200-85509400	Enhancers	Adipose Nuclei	Adipose
27	chr13:85509200-85509400	Flanking Active TSS	Liver	Liver
28	chr13:85509200-85509400	Enhancers	Fetal Kidney	kidney
29	chr13:85509200-85509400	Enhancers	Dnd41	blood
30	chr13:85509200-85509600	Enhancers	Primary T helper cells PMA-I stimulated	--
31	chr13:85509200-85509600	Active TSS	Colon Smooth Muscle	Colon

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links