Variant report

Variant	rs56039018
Chromosome Location	chr14:65090316-65090317
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr14:65070348..65072828-chr14:65088281..65092413,3	MCF-7	breast:
2	chr14:65086302..65088091-chr14:65089960..65092763,2	MCF-7	breast:
3	chr14:65005308..65008716-chr14:65090301..65092623,4	MCF-7	breast:

Variant related genes	Relation type
ENSG00000259116	Chromatin interaction
ENSG00000126803	Chromatin interaction

Extended variants
information (count: 48 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:47)

rs_ID	r²[population]
rs10130241	0.92[ASN][1000 genomes]
rs10130755	0.91[ASN][1000 genomes]
rs10132794	0.92[ASN][1000 genomes]
rs10133861	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10134770	0.99[ASN][1000 genomes]
rs10138611	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10140678	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10144661	0.87[ASN][1000 genomes]
rs10145003	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10145101	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10145275	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10145844	0.96[ASN][1000 genomes]
rs10150987	0.89[ASN][1000 genomes]
rs10151656	0.98[ASN][1000 genomes]
rs10467818	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10498516	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11158547	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11158548	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs11158549	0.83[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs11844669	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11846008	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11848587	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11850291	0.94[ASN][1000 genomes]
rs12586275	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12588437	0.94[ASN][1000 genomes]
rs12588509	0.94[ASN][1000 genomes]
rs17101956	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1955661	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1955662	0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1955663	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2123458	0.85[ASN][1000 genomes]
rs28714198	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs28761289	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2884269	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56396472	0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs56690759	0.82[ASN][1000 genomes]
rs61987035	0.89[ASN][1000 genomes]
rs61987036	0.94[ASN][1000 genomes]
rs61987038	0.86[ASN][1000 genomes]
rs7140482	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7148864	0.91[ASN][1000 genomes]
rs7153518	0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7156649	0.85[AMR][1000 genomes];0.98[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs74056339	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs74056358	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs74056359	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs8006017	0.85[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1049097	chr14:65027753-65202018	Weak transcription Strong transcription Enhancers Genic enhancers Transcr. at gene 5' and 3' Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Active TSS Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	21 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:27 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr14:65079600-65093800	Weak transcription	Right Atrium	heart
2	chr14:65081800-65091800	Weak transcription	Stomach Smooth Muscle	stomach
3	chr14:65082000-65091800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
4	chr14:65085200-65092400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
5	chr14:65086400-65091800	Weak transcription	Fetal Intestine Large	intestine
6	chr14:65086400-65091800	Weak transcription	Fetal Intestine Small	intestine
7	chr14:65086400-65091800	Weak transcription	Stomach Mucosa	stomach
8	chr14:65086600-65090600	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
9	chr14:65086600-65091800	Weak transcription	Rectal Mucosa Donor 29	rectum
10	chr14:65086600-65092000	Weak transcription	A549	lung
11	chr14:65086600-65092000	Weak transcription	Hela-S3	cervix
12	chr14:65086800-65092000	Weak transcription	Placenta	Placenta
13	chr14:65087200-65090800	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
14	chr14:65089600-65092200	Weak transcription	Spleen	Spleen
15	chr14:65089800-65090600	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
16	chr14:65090000-65090400	Enhancers	Primary hematopoietic stem cells short term culture	blood
17	chr14:65090000-65090400	Flanking Active TSS	Osteobl	bone
18	chr14:65090000-65090600	Enhancers	Cortex derived primary cultured neurospheres	brain
19	chr14:65090000-65090600	Enhancers	Esophagus	oesophagus
20	chr14:65090000-65090800	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
21	chr14:65090000-65090800	Flanking Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
22	chr14:65090000-65090800	Enhancers	NHEK	skin
23	chr14:65090000-65091000	Enhancers	Rectal Mucosa Donor 31	rectum
24	chr14:65090200-65090600	Bivalent Enhancer	Primary T cells fromperipheralblood	blood
25	chr14:65090200-65090600	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
26	chr14:65090200-65090600	Enhancers	Fetal Brain Female	brain
27	chr14:65090200-65090800	Enhancers	Sigmoid Colon	Sigmoid Colon

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links