Variant report

Variant	rs12774369
Chromosome Location	chr10:45876916-45876917
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	chr10:45869704..45872011-chr10:45875506..45878430,2	K562	blood:
2	chr10:45873911..45876149-chr10:45876487..45879214,3	K562	blood:

Extended variants
information (count: 107 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:103)

rs_ID	r²[population]
rs10900212	1.00[CEU][hapmap];0.93[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11239486	0.84[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11239491	0.91[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11239492	0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11239497	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11239505	0.95[ASN][1000 genomes]
rs11511619	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11511620	0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11517281	0.89[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11523408	0.87[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12354712	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12354742	0.89[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12354994	0.82[AFR][1000 genomes];0.91[AMR][1000 genomes];0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12356109	0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12356140	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12358647	0.93[ASN][1000 genomes]
rs12359299	0.89[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12359302	0.83[AFR][1000 genomes];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12360250	0.90[AFR][1000 genomes];0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12762303	0.92[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12763738	0.90[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12764778	0.97[ASN][1000 genomes]
rs12768010	0.95[ASN][1000 genomes]
rs12783095	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12783182	0.88[ASN][1000 genomes]
rs12783895	0.82[ASN][1000 genomes]
rs17157728	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17157733	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs17157736	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1864412	0.92[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1864413	0.92[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1864414	0.91[AFR][1000 genomes];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2082108	0.86[AFR][1000 genomes];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2099170	0.86[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2303885	0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2310776	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28395865	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs34297550	0.88[ASN][1000 genomes]
rs34462692	0.84[ASN][1000 genomes]
rs34929604	0.82[ASN][1000 genomes]
rs34998367	0.88[ASN][1000 genomes]
rs35001574	0.86[ASN][1000 genomes]
rs35267934	0.88[ASN][1000 genomes]
rs35300270	0.83[ASN][1000 genomes]
rs35536930	0.83[ASN][1000 genomes]
rs35555369	0.81[ASN][1000 genomes]
rs35745197	0.80[ASN][1000 genomes]
rs35906360	0.85[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs3780894	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3780896	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3780897	0.99[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3780898	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3780899	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3824613	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4986832	0.92[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4987105	0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4987106	0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs55717607	0.91[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs55787481	0.89[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs55864145	0.95[ASN][1000 genomes]
rs55965812	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs55978138	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs55986122	0.86[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs56150414	0.92[AFR][1000 genomes];0.87[AMR][1000 genomes];0.92[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs56180358	0.86[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs57063108	0.97[ASN][1000 genomes]
rs57398542	0.87[ASN][1000 genomes]
rs58238740	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs58901177	0.97[ASN][1000 genomes]
rs59514896	0.83[ASN][1000 genomes]
rs60146827	0.83[ASN][1000 genomes]
rs60842538	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6413416	0.92[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6593478	0.84[ASN][1000 genomes]
rs6593482	0.86[AFR][1000 genomes];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs66489870	0.92[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs67008983	0.92[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs67491417	0.82[AFR][1000 genomes];0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7071714	0.88[ASN][1000 genomes]
rs7077891	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7080897	0.83[ASN][1000 genomes]
rs7081004	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7083500	0.83[ASN][1000 genomes]
rs7084793	0.91[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7085205	0.83[ASN][1000 genomes]
rs7093687	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7097429	0.83[ASN][1000 genomes]
rs71494772	0.84[ASN][1000 genomes]
rs71494775	0.92[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs71494776	0.94[ASN][1000 genomes]
rs71494779	0.83[ASN][1000 genomes]
rs72561472	0.93[AMR][1000 genomes];0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs745986	0.95[ASN][1000 genomes]
rs7896861	0.88[ASN][1000 genomes]
rs7898465	0.88[ASN][1000 genomes]
rs7909740	0.91[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7909768	0.91[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7913488	0.91[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7917687	0.83[ASN][1000 genomes]
rs7918542	0.83[ASN][1000 genomes]
rs7919239	0.84[ASN][1000 genomes]
rs7921503	0.88[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9663661	0.92[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv895105	chr10:45636867-45928822	Enhancers Weak transcription Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Flanking Active TSS Active TSS Strong transcription Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	13 gene(s)	inside rSNPs	diseases
2	nsv430166	chr10:45668894-46148794	Bivalent Enhancer Strong transcription Weak transcription Enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
3	nsv993428	chr10:45742877-46224333	Enhancers Active TSS Weak transcription ZNF genes & repeats Bivalent/Poised TSS Strong transcription Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	19 gene(s)	inside rSNPs	diseases
4	nsv895107	chr10:45850300-45953767	Strong transcription Enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Weak transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	2 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs12774369	ALOX5	Cis_1M	lymphoblastoid	RTeQTL
rs12774369	ALOX5	cis	Cerebellum	GTEx

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:45870600-45891200	Weak transcription	Pancreatic Islets	Pancreatic Islet
2	chr10:45870800-45877200	Enhancers	Primary hematopoietic stem cells short term culture	blood
3	chr10:45870800-45880400	Weak transcription	Esophagus	oesophagus
4	chr10:45871400-45904600	Weak transcription	Gastric	stomach
5	chr10:45871600-45877200	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
6	chr10:45871600-45894000	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
7	chr10:45871800-45877200	Enhancers	Placenta	Placenta
8	chr10:45872200-45883800	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
9	chr10:45872400-45877000	Enhancers	Primary monocytes fromperipheralblood	blood
10	chr10:45874200-45877000	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
11	chr10:45874200-45877400	Genic enhancers	Primary B cells from cord blood	blood
12	chr10:45874600-45877800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
13	chr10:45875200-45878000	Weak transcription	Fetal Intestine Small	intestine
14	chr10:45875400-45878600	Enhancers	Fetal Thymus	thymus
15	chr10:45875800-45877800	Weak transcription	Pancreas	Pancrea
16	chr10:45875800-45878400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
17	chr10:45875800-45891200	Weak transcription	Duodenum Mucosa	Duodenum
18	chr10:45876000-45877600	Weak transcription	GM12878-XiMat	blood
19	chr10:45876000-45899200	Weak transcription	Rectal Mucosa Donor 29	rectum
20	chr10:45876400-45877000	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
21	chr10:45876400-45877000	Enhancers	Thymus	Thymus
22	chr10:45876400-45879200	Genic enhancers	Primary neutrophils fromperipheralblood	blood
23	chr10:45876600-45877000	Enhancers	Cortex derived primary cultured neurospheres	brain
24	chr10:45876600-45877200	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
25	chr10:45876600-45878000	Enhancers	Lung	lung
26	chr10:45876600-45878800	Weak transcription	Adipose Nuclei	Adipose
27	chr10:45876600-45879000	Weak transcription	Primary hematopoietic stem cells	blood
28	chr10:45876600-45879400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
29	chr10:45876800-45877000	Enhancers	Brain Hippocampus Middle	brain
30	chr10:45876800-45877000	Enhancers	Brain Substantia Nigra	brain
31	chr10:45876800-45877200	Enhancers	Skeletal Muscle Female	skeletal muscle
32	chr10:45876800-45884000	Strong transcription	Spleen	Spleen
33	chr10:45876800-45884400	Strong transcription	Primary B cells from peripheral blood	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links