Variant report

Variant	rs10056088
Chromosome Location	chr5:118456977-118456978
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 22 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:19)

rs_ID	r²[population]
rs11241482	0.83[ASN][1000 genomes]
rs11241486	0.87[EUR][1000 genomes]
rs11241492	0.86[EUR][1000 genomes]
rs11738650	0.83[EUR][1000 genomes]
rs12188483	0.83[ASN][1000 genomes]
rs12516300	0.85[CEU][hapmap];0.88[EUR][1000 genomes]
rs12653377	0.90[EUR][1000 genomes]
rs12653870	0.87[EUR][1000 genomes]
rs12659055	0.90[EUR][1000 genomes]
rs3923326	0.84[CEU][hapmap]
rs4583917	0.81[CEU][hapmap];0.85[EUR][1000 genomes]
rs57278208	0.87[EUR][1000 genomes]
rs60504316	0.83[EUR][1000 genomes]
rs62374138	0.80[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs6595176	0.83[EUR][1000 genomes]
rs6863826	0.81[CEU][hapmap];0.86[EUR][1000 genomes]
rs6874227	0.81[CEU][hapmap];0.89[EUR][1000 genomes]
rs7713483	0.87[EUR][1000 genomes]
rs9790885	0.83[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv882774	chr5:118325429-118553470	Weak transcription Strong transcription ZNF genes & repeats Genic enhancers Flanking Active TSS Enhancers Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	18 gene(s)	inside rSNPs	diseases
2	esv3511406	chr5:118409810-118459495	Enhancers Weak transcription ZNF genes & repeats Strong transcription Genic enhancers Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
3	esv3511407	chr5:118409863-118459482	Weak transcription Strong transcription Enhancers ZNF genes & repeats Flanking Active TSS Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:120 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:118409000-118471200	Weak transcription	Gastric	stomach
2	chr5:118412200-118522800	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
3	chr5:118414400-118472200	Weak transcription	Pancreas	Pancrea
4	chr5:118415400-118471600	Weak transcription	Right Ventricle	heart
5	chr5:118417000-118459200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
6	chr5:118427000-118458200	Weak transcription	Spleen	Spleen
7	chr5:118430200-118471400	Weak transcription	Colonic Mucosa	Colon
8	chr5:118430800-118472200	Weak transcription	Esophagus	oesophagus
9	chr5:118431000-118472200	Weak transcription	Small Intestine	intestine
10	chr5:118432800-118459200	Weak transcription	Fetal Brain Female	brain
11	chr5:118433000-118466800	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
12	chr5:118433000-118468600	Weak transcription	Fetal Heart	heart
13	chr5:118434000-118457200	Strong transcription	Primary B cells from peripheral blood	blood
14	chr5:118434200-118471000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
15	chr5:118435600-118458200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
16	chr5:118438600-118484400	Weak transcription	NHLF	lung
17	chr5:118439400-118457200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
18	chr5:118442000-118465200	Weak transcription	Brain Cingulate Gyrus	brain
19	chr5:118442200-118472200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
20	chr5:118442400-118465200	Weak transcription	Brain Angular Gyrus	brain
21	chr5:118443200-118472200	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
22	chr5:118443400-118457400	Strong transcription	Primary monocytes fromperipheralblood	blood
23	chr5:118443800-118457000	Strong transcription	Monocytes-CD14+_RO01746	blood
24	chr5:118444000-118472000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
25	chr5:118444800-118471200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
26	chr5:118445400-118457800	Strong transcription	HUES6 Cell Line	embryonic stem cell
27	chr5:118445600-118467200	Weak transcription	A549	lung
28	chr5:118447400-118485400	Weak transcription	Pancreatic Islets	Pancreatic Islet
29	chr5:118448800-118471600	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
30	chr5:118449200-118457000	Strong transcription	Duodenum Mucosa	Duodenum
31	chr5:118449200-118457200	Strong transcription	Rectal Mucosa Donor 29	rectum
32	chr5:118449400-118457200	Strong transcription	Adipose Nuclei	Adipose
33	chr5:118449600-118457000	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
34	chr5:118449800-118457000	Strong transcription	Dnd41	blood
35	chr5:118449800-118457200	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
36	chr5:118450200-118457000	Strong transcription	Liver	Liver
37	chr5:118450400-118457000	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
38	chr5:118450400-118496800	Weak transcription	Stomach Mucosa	stomach
39	chr5:118450600-118457400	Strong transcription	Primary neutrophils fromperipheralblood	blood
40	chr5:118450800-118457000	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
41	chr5:118450800-118457200	Strong transcription	iPS-18 Cell Line	embryonic stem cell
42	chr5:118451000-118457600	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
43	chr5:118451200-118533400	Weak transcription	Placenta Amnion	Placenta Amnion
44	chr5:118451400-118457000	Strong transcription	Primary B cells from cord blood	blood
45	chr5:118451400-118457000	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
46	chr5:118451400-118457000	Strong transcription	Fetal Intestine Large	intestine
47	chr5:118451600-118457000	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
48	chr5:118451600-118457000	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
49	chr5:118451600-118457000	Strong transcription	Placenta	Placenta
50	chr5:118451800-118457000	Strong transcription	Primary T cells from cord blood	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links