Variant report

Variant	rs852976
Chromosome Location	chr5:142685438-142685439
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 18 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:15)

rs_ID	r²[population]
rs10041520	0.93[AMR][1000 genomes];0.91[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs258747	0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs258763	0.85[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs33383	0.95[AFR][1000 genomes];0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs33388	0.86[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4634384	0.94[AMR][1000 genomes];0.90[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs6191	0.92[AFR][1000 genomes];0.99[AMR][1000 genomes];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6877893	0.90[AFR][1000 genomes];0.94[AMR][1000 genomes];0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7716360	0.82[AFR][1000 genomes];0.94[AMR][1000 genomes];0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs852980	0.98[AFR][1000 genomes];0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs852983	0.93[AFR][1000 genomes];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs853175	0.80[EUR][1000 genomes]
rs853180	0.89[ASN][1000 genomes]
rs853183	0.85[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs864354	0.80[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	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	chr5:142664400-142693400	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
7	chr5:142667400-142688800	Strong transcription	Primary monocytes fromperipheralblood	blood
8	chr5:142668600-142688800	Strong transcription	Monocytes-CD14+_RO01746	blood
9	chr5:142668800-142693800	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
10	chr5:142671200-142686400	Weak transcription	Fetal Intestine Small	intestine
11	chr5:142674400-142688200	Weak transcription	Psoas Muscle	Psoas
12	chr5:142677600-142697800	Weak transcription	Fetal Brain Male	brain
13	chr5:142678200-142685800	Weak transcription	Fetal Heart	heart
14	chr5:142678200-142687400	Weak transcription	Fetal Kidney	kidney
15	chr5:142678200-142687600	Weak transcription	Lung	lung
16	chr5:142678200-142695400	Weak transcription	Gastric	stomach
17	chr5:142678400-142687600	Weak transcription	Sigmoid Colon	Sigmoid Colon
18	chr5:142678400-142689200	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
19	chr5:142678400-142691400	Weak transcription	Rectal Mucosa Donor 29	rectum
20	chr5:142678400-142693400	Weak transcription	Aorta	Aorta
21	chr5:142678400-142693400	Weak transcription	Rectal Smooth Muscle	rectum
22	chr5:142678400-142693600	Weak transcription	Brain Angular Gyrus	brain
23	chr5:142678400-142693800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
24	chr5:142678600-142688200	Weak transcription	Brain Cingulate Gyrus	brain
25	chr5:142679200-142686600	Weak transcription	Fetal Stomach	stomach
26	chr5:142680200-142686200	Weak transcription	Hela-S3	cervix
27	chr5:142680200-142687200	Weak transcription	Primary T helper naive cells from peripheral blood	blood
28	chr5:142680200-142687200	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
29	chr5:142680200-142687600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
30	chr5:142680200-142688200	Weak transcription	Stomach Smooth Muscle	stomach
31	chr5:142680200-142689000	Weak transcription	Small Intestine	intestine
32	chr5:142680200-142691000	Weak transcription	Skeletal Muscle Male	skeletal muscle
33	chr5:142680200-142691400	Weak transcription	Ovary	ovary
34	chr5:142680200-142691600	Weak transcription	Brain Inferior Temporal Lobe	brain
35	chr5:142680200-142691800	Weak transcription	Brain Substantia Nigra	brain
36	chr5:142680400-142687600	Weak transcription	Duodenum Smooth Muscle	Duodenum
37	chr5:142680400-142688400	Weak transcription	Colon Smooth Muscle	Colon
38	chr5:142680400-142690800	Weak transcription	HepG2	liver
39	chr5:142680600-142685600	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
40	chr5:142681000-142689600	Weak transcription	Primary T killer memory cells from peripheral blood	blood
41	chr5:142681800-142687800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
42	chr5:142682000-142691200	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
43	chr5:142682200-142687400	Weak transcription	Placenta	Placenta
44	chr5:142682400-142688000	Weak transcription	HSMMtube	muscle
45	chr5:142682400-142689200	Weak transcription	HUVEC	blood vessel
46	chr5:142682600-142687400	Weak transcription	NH-A	brain
47	chr5:142682600-142698400	Weak transcription	Stomach Mucosa	stomach
48	chr5:142682800-142691400	Strong transcription	Primary T helper cells PMA-I stimulated	--
49	chr5:142683200-142693800	Strong transcription	Primary T cells from cord blood	blood
50	chr5:142683200-142693800	Strong transcription	Fetal Muscle Trunk	muscle

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links