Variant report

Variant	rs6886854
Chromosome Location	chr5:58447482-58447483
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 25 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:23)

rs_ID	r²[population]
rs10064744	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10070295	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.92[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10073292	0.96[ASN][1000 genomes]
rs10472094	0.81[EUR][1000 genomes]
rs10472095	0.81[EUR][1000 genomes]
rs12516263	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs16889248	0.84[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs16889254	0.84[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs16889258	0.84[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs1961	0.94[ASN][1000 genomes]
rs62356728	0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6450504	0.81[EUR][1000 genomes]
rs6450505	0.81[EUR][1000 genomes]
rs6868963	0.84[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs6869149	0.84[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs6881137	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6892369	0.87[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs6896497	0.82[EUR][1000 genomes]
rs7714707	0.94[EUR][1000 genomes]
rs7716261	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7735375	0.84[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs9292191	0.87[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs9918111	0.81[EUR][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	esv2830363	chr5:57893949-58555491	Weak transcription Active TSS Enhancers Flanking Active TSS Transcr. at gene 5' and 3' Strong transcription Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
2	nsv881702	chr5:58432413-58474854	Enhancers Weak transcription Strong transcription Flanking Active TSS Genic enhancers Active TSS ZNF genes & repeats Transcr. at gene 5' and 3'	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

Chromatin state (count:37 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:58427200-58454000	Weak transcription	Primary neutrophils fromperipheralblood	blood
2	chr5:58433000-58451600	Weak transcription	Fetal Muscle Leg	muscle
3	chr5:58437400-58454000	Weak transcription	Rectal Smooth Muscle	rectum
4	chr5:58439000-58484000	Weak transcription	Fetal Kidney	kidney
5	chr5:58440200-58448600	Weak transcription	Brain Anterior Caudate	brain
6	chr5:58442400-58448600	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
7	chr5:58443000-58447600	Weak transcription	Primary T helper cells fromperipheralblood	blood
8	chr5:58444000-58449800	Genic enhancers	A549	lung
9	chr5:58444800-58448000	Enhancers	Skeletal Muscle Female	skeletal muscle
10	chr5:58444800-58448400	Weak transcription	Primary hematopoietic stem cells short term culture	blood
11	chr5:58445800-58448000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
12	chr5:58446000-58448000	Enhancers	Fetal Intestine Small	intestine
13	chr5:58446000-58448600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
14	chr5:58446200-58448400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
15	chr5:58446200-58449000	Enhancers	Fetal Intestine Large	intestine
16	chr5:58446600-58447600	Enhancers	Rectal Mucosa Donor 31	rectum
17	chr5:58446600-58447800	Enhancers	Fetal Heart	heart
18	chr5:58446800-58449200	Enhancers	Pancreatic Islets	Pancreatic Islet
19	chr5:58447000-58447600	Enhancers	Primary T helper naive cells fromperipheralblood	blood
20	chr5:58447000-58447600	Enhancers	Right Ventricle	heart
21	chr5:58447000-58447600	Enhancers	Sigmoid Colon	Sigmoid Colon
22	chr5:58447000-58447600	Enhancers	Skeletal Muscle Male	skeletal muscle
23	chr5:58447000-58447800	Enhancers	HepG2	liver
24	chr5:58447000-58449400	Enhancers	Primary T helper cells PMA-I stimulated	--
25	chr5:58447000-58450000	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
26	chr5:58447000-58453400	Enhancers	Primary T cells from cord blood	blood
27	chr5:58447200-58447600	Enhancers	Left Ventricle	heart
28	chr5:58447200-58447600	Enhancers	Psoas Muscle	Psoas
29	chr5:58447200-58447600	Enhancers	Right Atrium	heart
30	chr5:58447200-58450000	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
31	chr5:58447400-58447600	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
32	chr5:58447400-58447600	Enhancers	Small Intestine	intestine
33	chr5:58447400-58448000	Enhancers	Fetal Thymus	thymus
34	chr5:58447400-58448400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
35	chr5:58447400-58449200	Enhancers	Colon Smooth Muscle	Colon
36	chr5:58447400-58449800	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
37	chr5:58447400-58451200	Weak transcription	Hela-S3	cervix

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