Variant report

Variant	rs2560831
Chromosome Location	chr5:16555452-16555453
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 27 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:26)

rs_ID	r²[population]
rs10053236	0.87[ASN][1000 genomes]
rs1020952	0.86[ASN][1000 genomes]
rs12109050	0.86[ASN][1000 genomes]
rs1551936	0.82[AMR][1000 genomes];0.90[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs162758	0.86[ASN][1000 genomes]
rs1991468	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1991469	0.90[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1991470	0.91[AFR][1000 genomes];0.98[AMR][1000 genomes];0.92[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1991471	0.91[AFR][1000 genomes];0.98[AMR][1000 genomes];0.92[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1991472	0.91[AFR][1000 genomes];0.98[AMR][1000 genomes];0.92[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2019248	0.91[AFR][1000 genomes];0.98[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2019260	0.91[AFR][1000 genomes];0.98[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2560829	0.84[ASN][1000 genomes]
rs2560830	0.91[AFR][1000 genomes];0.98[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2560832	0.81[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs2617422	0.91[AFR][1000 genomes];0.98[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2617423	0.90[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2617424	0.87[AFR][1000 genomes];0.95[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2617425	0.87[AFR][1000 genomes];0.95[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2617426	0.90[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs31283	0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs31288	0.95[AMR][1000 genomes];0.92[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6858960	0.84[AMR][1000 genomes];0.90[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs899186	0.84[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs991891	0.91[AFR][1000 genomes];0.98[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs994099	0.97[AMR][1000 genomes];0.92[EUR][1000 genomes];0.91[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	nsv881187	chr5:16514269-16654960	Enhancers Weak transcription Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS Flanking Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:36 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:16522400-16567400	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
2	chr5:16542600-16567200	Weak transcription	Primary T cells fromperipheralblood	blood
3	chr5:16543200-16591600	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
4	chr5:16543600-16589800	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
5	chr5:16544000-16562400	Weak transcription	Primary T helper cells fromperipheralblood	blood
6	chr5:16544200-16565200	Weak transcription	Primary T helper cells PMA-I stimulated	--
7	chr5:16545000-16574600	Weak transcription	Primary T helper naive cells from peripheral blood	blood
8	chr5:16546200-16559400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
9	chr5:16549200-16569000	Weak transcription	Left Ventricle	heart
10	chr5:16549200-16580200	Weak transcription	Gastric	stomach
11	chr5:16550400-16556800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
12	chr5:16550400-16557400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
13	chr5:16552400-16559200	Weak transcription	Primary T cells from cord blood	blood
14	chr5:16553000-16568600	Weak transcription	NHDF-Ad	bronchial
15	chr5:16553000-16573400	Weak transcription	Fetal Intestine Small	intestine
16	chr5:16553200-16556800	Weak transcription	Brain Angular Gyrus	brain
17	chr5:16553200-16557200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
18	chr5:16553200-16562000	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
19	chr5:16553200-16564600	Weak transcription	Psoas Muscle	Psoas
20	chr5:16553200-16564600	Weak transcription	Thymus	Thymus
21	chr5:16553400-16556000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
22	chr5:16553400-16556600	Weak transcription	Brain Substantia Nigra	brain
23	chr5:16553400-16556800	Weak transcription	Brain Cingulate Gyrus	brain
24	chr5:16553400-16558200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
25	chr5:16553400-16559200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
26	chr5:16553400-16559600	Weak transcription	HUES48 Cell Line	embryonic stem cell
27	chr5:16553400-16564200	Weak transcription	Fetal Heart	heart
28	chr5:16553400-16569600	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
29	chr5:16553400-16572800	Weak transcription	Rectal Mucosa Donor 29	rectum
30	chr5:16553600-16559200	Weak transcription	HUES64 Cell Line	embryonic stem cell
31	chr5:16554200-16556800	Weak transcription	Brain Hippocampus Middle	brain
32	chr5:16554400-16556600	Weak transcription	Brain Inferior Temporal Lobe	brain
33	chr5:16554600-16555600	Enhancers	Brain Anterior Caudate	brain
34	chr5:16555200-16571400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
35	chr5:16555400-16556400	Enhancers	Primary B cells from cord blood	blood
36	chr5:16555400-16556600	Enhancers	Primary B cells from peripheral blood	blood

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