Variant report

Variant	rs57899462
Chromosome Location	chr2:38847833-38847834
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr2:38846799..38849062-chr2:38862889..38864827,2	K562	blood:
2	chr2:38837653..38839575-chr2:38845023..38848760,3	MCF-7	breast:

Extended variants
information (count: 23 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:16)

rs_ID	r²[population]
rs56686184	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs58770088	1.00[AMR][1000 genomes]
rs59417682	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs60500692	1.00[AMR][1000 genomes]
rs61141629	1.00[AMR][1000 genomes]
rs72895869	1.00[AMR][1000 genomes]
rs72895872	1.00[AMR][1000 genomes]
rs72897624	1.00[AMR][1000 genomes]
rs72905853	1.00[AMR][1000 genomes]
rs72905893	1.00[AMR][1000 genomes]
rs72905899	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72907921	1.00[AFR][1000 genomes]
rs72907927	1.00[AMR][1000 genomes]
rs72907935	1.00[AMR][1000 genomes]
rs72909837	1.00[AFR][1000 genomes]
rs72909858	1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv916059	chr2:38332341-39119398	Weak transcription Flanking Active TSS Enhancers Genic enhancers Strong transcription Bivalent/Poised TSS Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	143 gene(s)	inside rSNPs	diseases
2	nsv9646	chr2:38358311-39082189	Enhancers Bivalent Enhancer Active TSS Flanking Active TSS Weak transcription Strong transcription ZNF genes & repeats Genic enhancers 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	141 gene(s)	inside rSNPs	diseases
3	nsv873881	chr2:38745624-38877636	Enhancers Flanking Active TSS Active TSS Strong transcription Weak transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	19 gene(s)	inside rSNPs	diseases
4	nsv581482	chr2:38799820-38858669	Enhancers Weak transcription Flanking Active TSS Genic enhancers Strong transcription Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
5	nsv581483	chr2:38799820-38862223	Weak transcription Enhancers Flanking Active TSS Strong transcription Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
6	nsv581484	chr2:38799820-38874177	Flanking Active TSS Active TSS Enhancers Weak transcription Genic enhancers Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
7	nsv581485	chr2:38839323-38893660	Weak transcription Enhancers Flanking Active TSS Active TSS Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	6 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	chr2:38835400-38862400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
2	chr2:38844400-38850800	Enhancers	Primary monocytes fromperipheralblood	blood
3	chr2:38844600-38848000	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
4	chr2:38845800-38848200	Enhancers	Stomach Mucosa	stomach
5	chr2:38846200-38848000	Bivalent Enhancer	Primary B cells from cord blood	blood
6	chr2:38846200-38848200	Enhancers	Primary hematopoietic stem cells short term culture	blood
7	chr2:38846200-38850400	Enhancers	Primary neutrophils fromperipheralblood	blood
8	chr2:38846400-38848200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
9	chr2:38846600-38848000	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
10	chr2:38846600-38848000	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
11	chr2:38846600-38848000	Enhancers	Osteobl	bone
12	chr2:38846600-38848800	Enhancers	HepG2	liver
13	chr2:38846800-38848000	Enhancers	Fetal Adrenal Gland	Adrenal Gland
14	chr2:38846800-38848000	Enhancers	Fetal Lung	lung
15	chr2:38846800-38848000	Enhancers	Fetal Thymus	thymus
16	chr2:38846800-38848000	Enhancers	Stomach Smooth Muscle	stomach
17	chr2:38846800-38848000	Enhancers	Thymus	Thymus
18	chr2:38846800-38848200	Enhancers	Colon Smooth Muscle	Colon
19	chr2:38846800-38848200	Enhancers	Duodenum Smooth Muscle	Duodenum
20	chr2:38847200-38848000	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
21	chr2:38847200-38848000	Enhancers	Ovary	ovary
22	chr2:38847400-38848000	Enhancers	Brain Hippocampus Middle	brain
23	chr2:38847400-38848000	Enhancers	Fetal Intestine Large	intestine
24	chr2:38847400-38848000	Enhancers	GM12878-XiMat	blood
25	chr2:38847400-38849600	Weak transcription	Primary hematopoietic stem cells	blood
26	chr2:38847400-38853400	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
27	chr2:38847600-38848000	Enhancers	Duodenum Mucosa	Duodenum
28	chr2:38847600-38848000	Enhancers	HSMMtube	muscle
29	chr2:38847600-38849200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
30	chr2:38847600-38849400	Weak transcription	HSMM	muscle
31	chr2:38847800-38848000	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
32	chr2:38847800-38849200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
33	chr2:38847800-38849400	Weak transcription	K562	blood
34	chr2:38847800-38849800	Weak transcription	Adipose Nuclei	Adipose
35	chr2:38847800-38852000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin

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