Variant report

Variant	rs852975
Chromosome Location	chr5:142683741-142683742
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 33 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:30)

rs_ID	r²[population]
rs10052957	0.81[AFR][1000 genomes];0.89[AMR][1000 genomes];0.89[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11747997	0.88[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs11749561	0.83[ASN][1000 genomes]
rs1635474	0.81[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs1837262	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs1866388	0.92[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs190488	0.84[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs258750	0.96[AFR][1000 genomes];0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs258753	0.81[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs258754	0.82[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs258755	0.81[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs258763	0.85[AFR][1000 genomes]
rs258813	0.97[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs258814	0.80[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs2918416	0.92[AFR][1000 genomes];0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2918417	0.86[AFR][1000 genomes];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2963149	0.92[AFR][1000 genomes];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2963153	0.90[AFR][1000 genomes];0.94[AMR][1000 genomes];0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs33380	0.85[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs6188	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72801096	0.93[ASN][1000 genomes]
rs852977	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs852979	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs852982	0.82[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs853154	0.88[ASN][1000 genomes]
rs853177	0.90[ASN][1000 genomes]
rs853178	0.90[ASN][1000 genomes]
rs860457	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs860465	0.90[ASN][1000 genomes]
rs862489	0.90[ASN][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	esv1825941	chr5:142568715-142728031	Weak transcription Enhancers Strong transcription Genic enhancers ZNF genes & repeats Active TSS Flanking Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	5 gene(s)	inside rSNPs	diseases
2	esv33748	chr5:142638267-142699595	Strong transcription Enhancers Weak transcription ZNF genes & repeats Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3'	Chromatin interactive region lncRNA miRNA target site	1 gene(s)	inside rSNPs	diseases
3	nsv5041	chr5:142653189-142697896	Enhancers Weak transcription Strong transcription Genic enhancers ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3'	Chromatin interactive region miRNA target site	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:105 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:142655800-142699200	Strong transcription	Dnd41	blood
2	chr5:142657800-142695400	Weak transcription	Pancreas	Pancrea
3	chr5:142658200-142694800	Weak transcription	Right Ventricle	heart
4	chr5:142658400-142714800	Weak transcription	Esophagus	oesophagus
5	chr5:142659800-142692600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
6	chr5:142664000-142684600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
7	chr5:142664000-142685000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
8	chr5:142664400-142693400	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
9	chr5:142667400-142688800	Strong transcription	Primary monocytes fromperipheralblood	blood
10	chr5:142668600-142688800	Strong transcription	Monocytes-CD14+_RO01746	blood
11	chr5:142668800-142693800	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
12	chr5:142671200-142686400	Weak transcription	Fetal Intestine Small	intestine
13	chr5:142674400-142688200	Weak transcription	Psoas Muscle	Psoas
14	chr5:142677600-142697800	Weak transcription	Fetal Brain Male	brain
15	chr5:142678200-142684200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
16	chr5:142678200-142684800	Weak transcription	Rectal Mucosa Donor 31	rectum
17	chr5:142678200-142685800	Weak transcription	Fetal Heart	heart
18	chr5:142678200-142687400	Weak transcription	Fetal Kidney	kidney
19	chr5:142678200-142687600	Weak transcription	Lung	lung
20	chr5:142678200-142695400	Weak transcription	Gastric	stomach
21	chr5:142678400-142684000	Weak transcription	Spleen	Spleen
22	chr5:142678400-142684200	Weak transcription	Placenta Amnion	Placenta Amnion
23	chr5:142678400-142684400	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
24	chr5:142678400-142684800	Weak transcription	Cortex derived primary cultured neurospheres	brain
25	chr5:142678400-142685000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
26	chr5:142678400-142685000	Weak transcription	Brain Anterior Caudate	brain
27	chr5:142678400-142685200	Weak transcription	Brain Hippocampus Middle	brain
28	chr5:142678400-142687600	Weak transcription	Sigmoid Colon	Sigmoid Colon
29	chr5:142678400-142689200	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
30	chr5:142678400-142691400	Weak transcription	Rectal Mucosa Donor 29	rectum
31	chr5:142678400-142693400	Weak transcription	Aorta	Aorta
32	chr5:142678400-142693400	Weak transcription	Rectal Smooth Muscle	rectum
33	chr5:142678400-142693600	Weak transcription	Brain Angular Gyrus	brain
34	chr5:142678400-142693800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
35	chr5:142678600-142688200	Weak transcription	Brain Cingulate Gyrus	brain
36	chr5:142679200-142686600	Weak transcription	Fetal Stomach	stomach
37	chr5:142680200-142684200	Weak transcription	Fetal Lung	lung
38	chr5:142680200-142685200	Weak transcription	Duodenum Mucosa	Duodenum
39	chr5:142680200-142686200	Weak transcription	Hela-S3	cervix
40	chr5:142680200-142687200	Weak transcription	Primary T helper naive cells from peripheral blood	blood
41	chr5:142680200-142687200	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
42	chr5:142680200-142687600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
43	chr5:142680200-142688200	Weak transcription	Stomach Smooth Muscle	stomach
44	chr5:142680200-142689000	Weak transcription	Small Intestine	intestine
45	chr5:142680200-142691000	Weak transcription	Skeletal Muscle Male	skeletal muscle
46	chr5:142680200-142691400	Weak transcription	Ovary	ovary
47	chr5:142680200-142691600	Weak transcription	Brain Inferior Temporal Lobe	brain
48	chr5:142680200-142691800	Weak transcription	Brain Substantia Nigra	brain
49	chr5:142680400-142684000	Weak transcription	Fetal Muscle Leg	muscle
50	chr5:142680400-142684200	Weak transcription	Primary hematopoietic stem cells	blood

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