Variant report

Variant	rs6781162
Chromosome Location	chr3:112081842-112081843
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 24 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:22)

rs_ID	r²[population]
rs4339085	0.92[AFR][1000 genomes]
rs57654125	0.88[AFR][1000 genomes]
rs59753245	0.92[AFR][1000 genomes]
rs59910010	0.92[AFR][1000 genomes]
rs61563653	0.88[AFR][1000 genomes]
rs6780859	1.00[AFR][1000 genomes]
rs6784174	0.97[AFR][1000 genomes]
rs6791181	0.92[AFR][1000 genomes]
rs6794784	0.92[AFR][1000 genomes]
rs6797023	0.97[AFR][1000 genomes]
rs6807033	0.92[AFR][1000 genomes]
rs6807758	0.93[AFR][1000 genomes]
rs6807853	0.97[AFR][1000 genomes]
rs6807944	0.97[AFR][1000 genomes]
rs72952427	0.98[AFR][1000 genomes]
rs72952431	0.97[AFR][1000 genomes]
rs72952432	0.97[AFR][1000 genomes]
rs72952434	0.92[AFR][1000 genomes]
rs72952435	0.88[AFR][1000 genomes]
rs72952441	0.92[AFR][1000 genomes]
rs72952469	1.00[AMR][1000 genomes]
rs7645214	0.92[AFR][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	nsv10307	chr3:111903974-112087686	Enhancers Active TSS Weak transcription Flanking Active TSS Strong transcription Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
2	nsv877341	chr3:112079277-112125521	Strong transcription Flanking Active TSS Weak transcription Enhancers Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases

No data

Chromatin state (count:78 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:112054800-112083000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
2	chr3:112061200-112083000	Weak transcription	Colonic Mucosa	Colon
3	chr3:112062400-112083000	Weak transcription	Sigmoid Colon	Sigmoid Colon
4	chr3:112066000-112089800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
5	chr3:112069200-112084000	Weak transcription	Fetal Kidney	kidney
6	chr3:112069200-112095400	Weak transcription	Rectal Mucosa Donor 31	rectum
7	chr3:112070200-112086200	Weak transcription	Cortex derived primary cultured neurospheres	brain
8	chr3:112070600-112086200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
9	chr3:112070600-112088800	Weak transcription	Brain Cingulate Gyrus	brain
10	chr3:112070800-112084600	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
11	chr3:112070800-112090600	Weak transcription	Brain Hippocampus Middle	brain
12	chr3:112071000-112083000	Weak transcription	Brain Substantia Nigra	brain
13	chr3:112071200-112083800	Weak transcription	Pancreatic Islets	Pancreatic Islet
14	chr3:112077000-112083000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
15	chr3:112077200-112082000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
16	chr3:112077200-112094200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
17	chr3:112077600-112082800	Strong transcription	HUES6 Cell Line	embryonic stem cell
18	chr3:112077600-112083000	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
19	chr3:112077600-112107200	Weak transcription	Rectal Mucosa Donor 29	rectum
20	chr3:112077800-112082600	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
21	chr3:112077800-112082800	Strong transcription	iPS-20b Cell Line	embryonic stem cell
22	chr3:112077800-112083000	Weak transcription	Primary monocytes fromperipheralblood	blood
23	chr3:112077800-112083000	Weak transcription	Monocytes-CD14+_RO01746	blood
24	chr3:112077800-112085400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
25	chr3:112077800-112085400	Weak transcription	Ovary	ovary
26	chr3:112078000-112082800	Weak transcription	Primary T helper cells fromperipheralblood	blood
27	chr3:112078000-112083000	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
28	chr3:112078000-112083000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
29	chr3:112078000-112083000	Weak transcription	HMEC	breast
30	chr3:112078000-112085200	Strong transcription	HUES48 Cell Line	embryonic stem cell
31	chr3:112078200-112083000	Weak transcription	Primary T helper naive cells from peripheral blood	blood
32	chr3:112078200-112086400	Strong transcription	HUES64 Cell Line	embryonic stem cell
33	chr3:112079400-112083000	Strong transcription	Fetal Thymus	thymus
34	chr3:112079400-112083400	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
35	chr3:112079400-112085600	Strong transcription	iPS-18 Cell Line	embryonic stem cell
36	chr3:112079400-112085800	Strong transcription	Primary hematopoietic stem cells	blood
37	chr3:112079400-112086200	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
38	chr3:112079600-112082400	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
39	chr3:112079600-112082400	Strong transcription	Fetal Brain Female	brain
40	chr3:112079600-112085800	Strong transcription	Primary hematopoietic stem cells short term culture	blood
41	chr3:112079800-112082200	Strong transcription	Primary T helper cells PMA-I stimulated	--
42	chr3:112079800-112082600	Strong transcription	Primary B cells from cord blood	blood
43	chr3:112080000-112083600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
44	chr3:112080000-112084000	Weak transcription	Hela-S3	cervix
45	chr3:112080000-112088800	Weak transcription	Colon Smooth Muscle	Colon
46	chr3:112080000-112096000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
47	chr3:112080400-112082600	Strong transcription	Brain Anterior Caudate	brain
48	chr3:112080600-112082600	Strong transcription	Breast Myoepithelial Primary Cells	Breast
49	chr3:112080600-112087400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
50	chr3:112080800-112082600	Strong transcription	Placenta	Placenta

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