Variant report

Variant	rs10166026
Chromosome Location	chr2:47521870-47521871
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr2:47403230..47405677-chr2:47521258..47523732,2	MCF-7	breast:
2	chr2:47509605..47513477-chr2:47518467..47523163,4	K562	blood:

Variant related genes	Relation type
ENSG00000143933	Chromatin interaction

Extended variants
information (count: 12 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:6)

rs_ID	r²[population]
rs10166123	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10168995	0.94[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10169556	0.88[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10171003	0.88[AFR][1000 genomes];0.85[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10189548	0.88[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10192326	0.88[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv817517	chr2:46819371-47715140	Enhancers Weak transcription Genic enhancers Bivalent Enhancer Flanking Active TSS Strong transcription Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	152 gene(s)	inside rSNPs	diseases
2	nsv1004828	chr2:47056849-47814482	Weak transcription Enhancers Strong transcription Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3' Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	144 gene(s)	inside rSNPs	diseases
3	nsv531348	chr2:47433147-47827310	Flanking Bivalent TSS/Enh Weak transcription Strong transcription Enhancers Flanking Active TSS Genic enhancers Active TSS Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	50 gene(s)	inside rSNPs	diseases
4	nsv457385	chr2:47468331-47552277	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Strong transcription	Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
5	nsv581755	chr2:47468331-47552277	Weak transcription Enhancers Flanking Active TSS Active TSS Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Strong transcription	Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
6	nsv999576	chr2:47506116-47773960	Weak transcription Strong transcription Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Enhancers Bivalent/Poised TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	43 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:33 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:47512000-47522400	Weak transcription	Brain Substantia Nigra	brain
2	chr2:47512200-47522400	Weak transcription	Brain Cingulate Gyrus	brain
3	chr2:47512200-47523000	Weak transcription	Brain Inferior Temporal Lobe	brain
4	chr2:47515000-47527400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
5	chr2:47515200-47523400	Enhancers	A549	lung
6	chr2:47515200-47528400	Weak transcription	HepG2	liver
7	chr2:47515400-47522400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
8	chr2:47516600-47525400	Weak transcription	Adipose Nuclei	Adipose
9	chr2:47517600-47522400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
10	chr2:47517600-47524200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
11	chr2:47517600-47525200	Weak transcription	NHDF-Ad	bronchial
12	chr2:47517600-47530400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
13	chr2:47517800-47526600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
14	chr2:47519000-47522600	Weak transcription	Colon Smooth Muscle	Colon
15	chr2:47519800-47527200	Weak transcription	Brain Germinal Matrix	brain
16	chr2:47519800-47537200	Weak transcription	Fetal Stomach	stomach
17	chr2:47520200-47534200	Weak transcription	Fetal Brain Female	brain
18	chr2:47520800-47523400	Enhancers	Fetal Intestine Large	intestine
19	chr2:47520800-47540000	Enhancers	Primary monocytes fromperipheralblood	blood
20	chr2:47521000-47523200	Enhancers	Fetal Intestine Small	intestine
21	chr2:47521200-47522200	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
22	chr2:47521200-47523400	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
23	chr2:47521200-47523400	Enhancers	Primary hematopoietic stem cells short term culture	blood
24	chr2:47521200-47523800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
25	chr2:47521400-47522200	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
26	chr2:47521400-47522400	Weak transcription	Brain Hippocampus Middle	brain
27	chr2:47521400-47522800	Enhancers	Primary hematopoietic stem cells	blood
28	chr2:47521400-47523400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
29	chr2:47521600-47522000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
30	chr2:47521600-47523600	Enhancers	Fetal Kidney	kidney
31	chr2:47521600-47526800	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
32	chr2:47521800-47522200	Enhancers	Monocytes-CD14+_RO01746	blood
33	chr2:47521800-47527000	Weak transcription	Duodenum Mucosa	Duodenum

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links