Variant report

Variant	rs12240281
Chromosome Location	chr10:96023437-96023438
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 31 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:29)

rs_ID	r²[population]
rs11187828	0.83[AFR][1000 genomes]
rs12248509	0.82[AFR][1000 genomes]
rs12258052	0.96[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12262808	0.83[AFR][1000 genomes]
rs1408820	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1830890	0.81[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs1858610	0.81[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs1969867	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2077218	0.85[ASN][1000 genomes]
rs2274225	0.98[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs34775698	0.93[AFR][1000 genomes];0.94[AMR][1000 genomes];0.89[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs35443777	0.82[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs3740362	0.85[EUR][1000 genomes]
rs4917450	0.91[AFR][1000 genomes];0.96[AMR][1000 genomes];0.89[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs4918172	0.91[AFR][1000 genomes];0.96[AMR][1000 genomes];0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs4918182	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4918184	0.99[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4918188	0.86[EUR][1000 genomes]
rs55753709	0.86[EUR][1000 genomes]
rs61886339	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7072099	0.98[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7072574	0.82[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs7075045	0.82[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs7081879	0.96[AFR][1000 genomes];0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7083628	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7919066	0.91[AFR][1000 genomes];0.96[AMR][1000 genomes];0.89[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7919320	0.87[AFR][1000 genomes];0.96[AMR][1000 genomes];0.89[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9787457	0.91[AFR][1000 genomes];0.96[AMR][1000 genomes];0.89[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9787670	0.91[AFR][1000 genomes];0.96[AMR][1000 genomes];0.89[EUR][1000 genomes];0.84[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:41 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:95974200-96034000	Weak transcription	Colon Smooth Muscle	Colon
2	chr10:95984800-96023800	Weak transcription	Pancreas	Pancrea
3	chr10:95985800-96033800	Weak transcription	Left Ventricle	heart
4	chr10:95994600-96045400	Weak transcription	Lung	lung
5	chr10:95995800-96051800	Weak transcription	Fetal Kidney	kidney
6	chr10:96004400-96034000	Weak transcription	Fetal Brain Male	brain
7	chr10:96005000-96031200	Weak transcription	Brain Germinal Matrix	brain
8	chr10:96006600-96030200	Weak transcription	Gastric	stomach
9	chr10:96006600-96030200	Weak transcription	Ovary	ovary
10	chr10:96006600-96033600	Weak transcription	Duodenum Smooth Muscle	Duodenum
11	chr10:96009400-96024000	Weak transcription	Small Intestine	intestine
12	chr10:96012600-96030600	Weak transcription	Stomach Mucosa	stomach
13	chr10:96012800-96030600	Weak transcription	Spleen	Spleen
14	chr10:96013200-96034000	Weak transcription	Adipose Nuclei	Adipose
15	chr10:96013600-96034000	Weak transcription	Rectal Smooth Muscle	rectum
16	chr10:96014000-96030000	Weak transcription	Skeletal Muscle Female	skeletal muscle
17	chr10:96014000-96034000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
18	chr10:96014400-96030800	Weak transcription	Placenta	Placenta
19	chr10:96015000-96070200	Weak transcription	Fetal Brain Female	brain
20	chr10:96016800-96032600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
21	chr10:96017000-96033600	Weak transcription	HSMMtube	muscle
22	chr10:96019000-96028000	Weak transcription	Sigmoid Colon	Sigmoid Colon
23	chr10:96019000-96028600	Weak transcription	Colonic Mucosa	Colon
24	chr10:96019800-96027000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
25	chr10:96020200-96026000	Weak transcription	Rectal Mucosa Donor 29	rectum
26	chr10:96020200-96026000	Weak transcription	A549	lung
27	chr10:96020200-96027000	Weak transcription	Stomach Smooth Muscle	stomach
28	chr10:96020200-96028200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
29	chr10:96020200-96028200	Weak transcription	Aorta	Aorta
30	chr10:96020200-96030200	Weak transcription	Duodenum Mucosa	Duodenum
31	chr10:96020800-96039800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
32	chr10:96021400-96024000	Strong transcription	Cortex derived primary cultured neurospheres	brain
33	chr10:96021400-96027600	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
34	chr10:96022000-96025800	Strong transcription	Fetal Stomach	stomach
35	chr10:96022600-96024000	Weak transcription	Fetal Muscle Trunk	muscle
36	chr10:96022600-96024000	Weak transcription	Fetal Muscle Leg	muscle
37	chr10:96022600-96025400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
38	chr10:96022600-96025600	Weak transcription	Fetal Intestine Large	intestine
39	chr10:96022600-96026200	Weak transcription	Fetal Lung	lung
40	chr10:96022800-96023600	Weak transcription	Rectal Mucosa Donor 31	rectum
41	chr10:96023000-96024800	Strong transcription	Fetal Intestine Small	intestine

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