Variant report

Variant	rs74017499
Chromosome Location	chr15:56542215-56542216
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr15:56541414..56543622-chr15:56724476..56727386,2	K562	blood:
2	chr15:56536983..56539715-chr15:56539921..56543667,5	K562	blood:
3	chr15:56540966..56543133-chr15:56718827..56720916,2	MCF-7	breast:
4	chr15:56505235..56506944-chr15:56541273..56542903,2	K562	blood:
5	chr15:56494171..56496972-chr15:56541763..56543619,2	K562	blood:

Variant related genes	Relation type
ENSG00000138587	Chromatin interaction

Extended variants
information (count: 24 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:22)

rs_ID	r²[population]
rs10518847	1.00[AMR][1000 genomes]
rs12101968	0.83[AMR][1000 genomes]
rs57664818	1.00[AMR][1000 genomes]
rs58033458	1.00[AMR][1000 genomes]
rs58074377	1.00[AMR][1000 genomes]
rs59808258	1.00[AMR][1000 genomes]
rs60307110	1.00[AMR][1000 genomes]
rs60398723	1.00[AMR][1000 genomes]
rs61176298	1.00[AMR][1000 genomes]
rs7163562	1.00[AMR][1000 genomes]
rs7167598	1.00[AMR][1000 genomes]
rs7171643	1.00[AMR][1000 genomes]
rs73411506	1.00[AMR][1000 genomes]
rs73411535	1.00[AMR][1000 genomes]
rs73411540	1.00[AMR][1000 genomes]
rs73411553	1.00[AMR][1000 genomes]
rs73411565	1.00[AMR][1000 genomes]
rs74017486	0.84[AFR][1000 genomes]
rs74018319	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs8040898	0.83[AMR][1000 genomes]
rs8041393	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9672464	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv833019	chr15:56486029-56649933	Transcr. at gene 5' and 3' Weak transcription Enhancers Active TSS Flanking Active TSS Strong transcription ZNF genes & repeats Genic enhancers Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
2	nsv569547	chr15:56504598-56572176	ZNF genes & repeats Flanking Active TSS Enhancers Active TSS Strong transcription Weak transcription Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:18 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:56538200-56546600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
2	chr15:56538400-56544000	Weak transcription	Fetal Brain Male	brain
3	chr15:56538400-56546000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
4	chr15:56538600-56543400	Weak transcription	Skeletal Muscle Female	skeletal muscle
5	chr15:56538800-56544000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
6	chr15:56538800-56544000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
7	chr15:56538800-56546400	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
8	chr15:56538800-56546600	Weak transcription	H1 Cell Line	embryonic stem cell
9	chr15:56540600-56543200	Weak transcription	Primary hematopoietic stem cells	blood
10	chr15:56540800-56544200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
11	chr15:56541200-56543000	Weak transcription	K562	blood
12	chr15:56541200-56543800	Weak transcription	Primary hematopoietic stem cells short term culture	blood
13	chr15:56541400-56543800	Weak transcription	HUES64 Cell Line	embryonic stem cell
14	chr15:56541400-56543800	Weak transcription	Stomach Mucosa	stomach
15	chr15:56541400-56544200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
16	chr15:56541600-56544000	Weak transcription	Fetal Intestine Large	intestine
17	chr15:56542200-56542400	Enhancers	Fetal Intestine Small	intestine
18	chr15:56542200-56542400	Enhancers	Rectal Mucosa Donor 31	rectum

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links