Variant report

Variant	rs58017161
Chromosome Location	chr13:49116330-49116331
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr13:49109335..49111228-chr13:49113801..49116613,2	MCF-7	breast:
2	chr13:49106673..49108535-chr13:49114144..49118573,5	MCF-7	breast:
3	chr13:49109125..49111040-chr13:49114592..49116444,2	K562	blood:
4	chr13:49116019..49118411-chr13:49119146..49122086,2	K562	blood:
5	chr13:49115025..49117372-chr13:49140241..49143183,2	MCF-7	breast:
6	chr13:49113085..49114630-chr13:49116071..49118855,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000136161	Chromatin interaction

Extended variants
information (count: 14 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:9)

rs_ID	r²[population]
rs55946851	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs57910291	1.00[AMR][1000 genomes]
rs60646582	0.87[AFR][1000 genomes]
rs7319849	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7330657	0.92[AFR][1000 genomes]
rs7337391	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs74074955	0.84[AFR][1000 genomes]
rs7988315	1.00[AMR][1000 genomes]
rs9331982	0.92[AFR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv832602	chr13:49003159-49167781	Active TSS Enhancers Flanking Active TSS Weak transcription Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
2	nsv1041275	chr13:49045566-49242357	Weak transcription Enhancers Strong transcription Active TSS Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases
3	nsv541769	chr13:49045566-49242357	Flanking Active TSS Enhancers Weak transcription Bivalent Enhancer Genic enhancers Active TSS Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases
4	nsv832604	chr13:49061081-49281807	Weak transcription Strong transcription Enhancers Flanking Active TSS Genic enhancers ZNF genes & repeats Active TSS Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases
5	nsv1049117	chr13:49089476-49928945	Enhancers Strong transcription Weak transcription Genic enhancers Active TSS Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	42 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:35 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:49107800-49116400	Weak transcription	Lung	lung
2	chr13:49107800-49116800	Weak transcription	Pancreas	Pancrea
3	chr13:49108000-49116600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
4	chr13:49108400-49116400	Weak transcription	Primary hematopoietic stem cells	blood
5	chr13:49110800-49116400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
6	chr13:49111200-49116600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
7	chr13:49114000-49116600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
8	chr13:49114200-49116400	Weak transcription	Adipose Nuclei	Adipose
9	chr13:49114200-49116400	Weak transcription	Esophagus	oesophagus
10	chr13:49115800-49118400	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
11	chr13:49115800-49118400	Enhancers	Fetal Heart	heart
12	chr13:49116000-49116600	Enhancers	Skeletal Muscle Male	skeletal muscle
13	chr13:49116000-49116800	Enhancers	Dnd41	blood
14	chr13:49116000-49117400	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
15	chr13:49116200-49116400	Enhancers	Brain Substantia Nigra	brain
16	chr13:49116200-49116400	Enhancers	HepG2	liver
17	chr13:49116200-49116600	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
18	chr13:49116200-49116600	Enhancers	iPS-15b Cell Line	embryonic stem cell
19	chr13:49116200-49116800	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
20	chr13:49116200-49116800	Enhancers	Brain Hippocampus Middle	brain
21	chr13:49116200-49116800	Enhancers	Ovary	ovary
22	chr13:49116200-49116800	Enhancers	Right Atrium	heart
23	chr13:49116200-49116800	Enhancers	Skeletal Muscle Female	skeletal muscle
24	chr13:49116200-49116800	Enhancers	Stomach Smooth Muscle	stomach
25	chr13:49116200-49116800	Enhancers	Monocytes-CD14+_RO01746	blood
26	chr13:49116200-49117000	Enhancers	Right Ventricle	heart
27	chr13:49116200-49117200	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
28	chr13:49116200-49117200	Enhancers	Fetal Muscle Trunk	muscle
29	chr13:49116200-49117200	Enhancers	Fetal Stomach	stomach
30	chr13:49116200-49117200	Enhancers	Fetal Thymus	thymus
31	chr13:49116200-49117200	Enhancers	Left Ventricle	heart
32	chr13:49116200-49117400	Enhancers	Fetal Muscle Leg	muscle
33	chr13:49116200-49117400	Enhancers	Psoas Muscle	Psoas
34	chr13:49116200-49117600	Enhancers	Primary monocytes fromperipheralblood	blood
35	chr13:49116200-49117600	Enhancers	Primary hematopoietic stem cells short term culture	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links