Variant report

Variant	rs56376834
Chromosome Location	chr10:96048899-96048900
allele	A/C
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:16)

rs_ID	r²[population]
rs12766693	0.96[ASN][1000 genomes]
rs12781422	0.96[ASN][1000 genomes]
rs28478908	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35446195	0.88[ASN][1000 genomes]
rs3758524	1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3758528	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55635140	0.85[EUR][1000 genomes]
rs55666785	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55980465	0.88[ASN][1000 genomes]
rs56041302	1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56041757	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56141979	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56240705	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56400969	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs730809	1.00[EUR][1000 genomes]
rs7914997	0.96[ASN][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	nsv1036676	chr10:95851376-96103876	Strong transcription Enhancers Weak transcription ZNF genes & repeats Bivalent Enhancer Active TSS Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
2	esv2761616	chr10:95966768-96303701	Enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers Weak transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:68 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:95995800-96051800	Weak transcription	Fetal Kidney	kidney
2	chr10:96015000-96070200	Weak transcription	Fetal Brain Female	brain
3	chr10:96031800-96121000	Weak transcription	Stomach Mucosa	stomach
4	chr10:96034600-96052600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
5	chr10:96035400-96052400	Weak transcription	Brain Substantia Nigra	brain
6	chr10:96035600-96052400	Weak transcription	Skeletal Muscle Male	skeletal muscle
7	chr10:96035600-96066800	Weak transcription	Skeletal Muscle Female	skeletal muscle
8	chr10:96036000-96081600	Weak transcription	Left Ventricle	heart
9	chr10:96036200-96052000	Weak transcription	Fetal Lung	lung
10	chr10:96037800-96069000	Weak transcription	Gastric	stomach
11	chr10:96038800-96049400	Strong transcription	Rectal Mucosa Donor 29	rectum
12	chr10:96039600-96051200	Strong transcription	Fetal Intestine Large	intestine
13	chr10:96040000-96052200	Weak transcription	Adipose Nuclei	Adipose
14	chr10:96040000-96052200	Weak transcription	Brain Hippocampus Middle	brain
15	chr10:96040200-96066200	Weak transcription	Pancreas	Pancrea
16	chr10:96043600-96121000	Weak transcription	Psoas Muscle	Psoas
17	chr10:96044600-96052200	Weak transcription	Duodenum Smooth Muscle	Duodenum
18	chr10:96045000-96051400	Strong transcription	Fetal Stomach	stomach
19	chr10:96045200-96050200	Strong transcription	Fetal Intestine Small	intestine
20	chr10:96045600-96052000	Weak transcription	Colon Smooth Muscle	Colon
21	chr10:96045600-96058200	Weak transcription	Duodenum Mucosa	Duodenum
22	chr10:96045800-96061800	Weak transcription	Colonic Mucosa	Colon
23	chr10:96046200-96052200	Weak transcription	Rectal Smooth Muscle	rectum
24	chr10:96046200-96066200	Weak transcription	Right Atrium	heart
25	chr10:96046600-96052400	Weak transcription	A549	lung
26	chr10:96046800-96049000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
27	chr10:96046800-96052000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
28	chr10:96046800-96052000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
29	chr10:96046800-96052200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
30	chr10:96047200-96049000	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
31	chr10:96047200-96049200	Enhancers	iPS-15b Cell Line	embryonic stem cell
32	chr10:96047200-96049200	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
33	chr10:96047400-96049200	Weak transcription	Ovary	ovary
34	chr10:96047400-96052400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
35	chr10:96047400-96052400	Weak transcription	HUVEC	blood vessel
36	chr10:96047400-96060800	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
37	chr10:96047800-96049200	Enhancers	Cortex derived primary cultured neurospheres	brain
38	chr10:96047800-96049200	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
39	chr10:96047800-96049200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
40	chr10:96047800-96049600	Strong transcription	Stomach Smooth Muscle	stomach
41	chr10:96047800-96051600	Strong transcription	Fetal Muscle Trunk	muscle
42	chr10:96047800-96051600	Strong transcription	Fetal Muscle Leg	muscle
43	chr10:96047800-96052000	Weak transcription	Muscle Satellite Cultured Cells	--
44	chr10:96047800-96052200	Weak transcription	NH-A	brain
45	chr10:96047800-96052200	Weak transcription	Osteobl	bone
46	chr10:96047800-96068200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
47	chr10:96048000-96049000	Enhancers	H9 Cell Line	embryonic stem cell
48	chr10:96048000-96049200	Enhancers	ES-WA7 Cell Line	embryonic stem cell
49	chr10:96048000-96049200	Enhancers	H1 Cell Line	embryonic stem cell
50	chr10:96048000-96049200	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links