Variant report

Variant	rs11892861
Chromosome Location	chr2:33580724-33580725
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:13)

rs_ID	r²[population]
rs10198960	0.92[ASN][1000 genomes]
rs2290426	0.85[ASN][1000 genomes]
rs2305502	0.92[ASN][1000 genomes]
rs28414403	0.84[ASN][1000 genomes]
rs28437398	0.84[ASN][1000 genomes]
rs28709139	0.85[ASN][1000 genomes]
rs34447926	0.88[ASN][1000 genomes]
rs3769549	0.85[ASN][1000 genomes]
rs3769550	0.92[ASN][1000 genomes]
rs3769552	0.81[AMR][1000 genomes];0.81[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs59867835	0.90[ASN][1000 genomes]
rs6543707	0.97[ASN][1000 genomes]
rs72861411	0.83[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1005435	chr2:33136117-33747159	Weak transcription Strong transcription Enhancers Flanking Active TSS Transcr. at gene 5' and 3' Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	22 gene(s)	inside rSNPs	diseases
2	nsv535624	chr2:33136117-33747159	Weak transcription Enhancers Genic enhancers Flanking Active TSS Bivalent Enhancer Strong transcription ZNF genes & repeats Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	22 gene(s)	inside rSNPs	diseases
3	nsv873791	chr2:33489975-33586776	Weak transcription Enhancers Genic enhancers Strong transcription Flanking Active TSS Transcr. at gene 5' and 3' Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	7 gene(s)	inside rSNPs	diseases
4	nsv1012967	chr2:33533340-33638312	Enhancers Weak transcription ZNF genes & repeats Genic enhancers Strong transcription Bivalent Enhancer Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region	5 gene(s)	inside rSNPs	diseases
5	nsv535627	chr2:33533340-33638312	Enhancers Weak transcription Strong transcription Genic enhancers ZNF genes & repeats Active TSS Flanking Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	5 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:33529800-33609400	Weak transcription	Right Ventricle	heart
2	chr2:33540800-33580800	Weak transcription	Placenta	Placenta
3	chr2:33547800-33581000	Weak transcription	Fetal Lung	lung
4	chr2:33548200-33588400	Weak transcription	Colon Smooth Muscle	Colon
5	chr2:33549000-33588800	Weak transcription	Duodenum Smooth Muscle	Duodenum
6	chr2:33558400-33592200	Weak transcription	Rectal Mucosa Donor 31	rectum
7	chr2:33564000-33582200	Weak transcription	Esophagus	oesophagus
8	chr2:33564200-33591600	Weak transcription	Psoas Muscle	Psoas
9	chr2:33565600-33580800	Weak transcription	Fetal Muscle Trunk	muscle
10	chr2:33565800-33590400	Weak transcription	Skeletal Muscle Male	skeletal muscle
11	chr2:33565800-33590400	Weak transcription	Skeletal Muscle Female	skeletal muscle
12	chr2:33566800-33581000	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
13	chr2:33570400-33580800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
14	chr2:33570600-33587400	Weak transcription	Fetal Heart	heart
15	chr2:33570800-33588400	Weak transcription	Rectal Smooth Muscle	rectum
16	chr2:33571000-33590600	Weak transcription	Brain Hippocampus Middle	brain
17	chr2:33571600-33591600	Weak transcription	Brain Substantia Nigra	brain
18	chr2:33572400-33581000	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
19	chr2:33572400-33582600	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
20	chr2:33574800-33581000	Strong transcription	Stomach Smooth Muscle	stomach
21	chr2:33575000-33581000	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
22	chr2:33575200-33580800	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
23	chr2:33576600-33582600	Strong transcription	Cortex derived primary cultured neurospheres	brain
24	chr2:33577000-33580800	Weak transcription	HSMMtube	muscle
25	chr2:33578000-33581000	Weak transcription	A549	lung
26	chr2:33578600-33580800	Weak transcription	Aorta	Aorta
27	chr2:33578600-33580800	Weak transcription	Fetal Stomach	stomach
28	chr2:33578600-33581000	Weak transcription	Left Ventricle	heart
29	chr2:33578800-33612200	Weak transcription	Fetal Kidney	kidney
30	chr2:33579400-33582800	ZNF genes & repeats	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
31	chr2:33579600-33580800	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
32	chr2:33579600-33581200	Enhancers	NHDF-Ad	bronchial
33	chr2:33579800-33580800	Weak transcription	Rectal Mucosa Donor 29	rectum
34	chr2:33579800-33581400	ZNF genes & repeats	IMR90 fetal lung fibroblasts Cell Line	lung
35	chr2:33579800-33581400	Strong transcription	Ovary	ovary
36	chr2:33579800-33581600	ZNF genes & repeats	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
37	chr2:33580000-33581000	Strong transcription	Liver	Liver
38	chr2:33580000-33581400	ZNF genes & repeats	HUES6 Cell Line	embryonic stem cell
39	chr2:33580000-33581400	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
40	chr2:33580200-33581000	Genic enhancers	Osteobl	bone
41	chr2:33580200-33581400	ZNF genes & repeats	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
42	chr2:33580200-33581400	ZNF genes & repeats	Fetal Muscle Leg	muscle
43	chr2:33580200-33581400	ZNF genes & repeats	Dnd41	blood
44	chr2:33580200-33581400	ZNF genes & repeats	HUVEC	blood vessel
45	chr2:33580400-33580800	Weak transcription	NHLF	lung
46	chr2:33580400-33581000	ZNF genes & repeats	iPS-20b Cell Line	embryonic stem cell
47	chr2:33580600-33580800	Weak transcription	NH-A	brain
48	chr2:33580600-33581000	ZNF genes & repeats	Fetal Adrenal Gland	Adrenal Gland
49	chr2:33580600-33581200	Genic enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
50	chr2:33580600-33581400	ZNF genes & repeats	Muscle Satellite Cultured Cells	--

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