Variant report

Variant	rs1228042
Chromosome Location	chr11:48045599-48045600
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 39 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:23)

rs_ID	r²[population]
rs1228026	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1228028	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1228031	0.89[AFR][1000 genomes];0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1228032	0.89[AFR][1000 genomes];0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1228036	0.83[AFR][1000 genomes];0.81[AMR][1000 genomes]
rs1228038	1.00[EUR][1000 genomes]
rs1228039	1.00[EUR][1000 genomes]
rs1228040	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1234904	0.89[AFR][1000 genomes];0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1237924	1.00[EUR][1000 genomes]
rs1238706	0.87[AFR][1000 genomes]
rs1630025	1.00[EUR][1000 genomes]
rs1681623	1.00[EUR][1000 genomes]
rs1681624	1.00[EUR][1000 genomes]
rs1681625	1.00[EUR][1000 genomes]
rs1729286	1.00[EUR][1000 genomes]
rs1729291	1.00[EUR][1000 genomes]
rs2626565	1.00[EUR][1000 genomes]
rs2930193	0.99[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2930194	0.99[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2930197	0.98[AFR][1000 genomes];0.84[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2950891	0.87[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73462886	1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:16 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1052397	chr11:47675470-48594256	Weak transcription Strong transcription Genic enhancers Enhancers Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	97 gene(s)	inside rSNPs	diseases
2	nsv530620	chr11:47765455-48664555	Weak transcription Genic enhancers Enhancers Flanking Active TSS Strong transcription Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	93 gene(s)	inside rSNPs	diseases
3	nsv1036992	chr11:47794621-48666024	Strong transcription Flanking Active TSS Enhancers Weak transcription Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	54 gene(s)	inside rSNPs	diseases
4	nsv1036451	chr11:47902321-48616646	Weak transcription Enhancers ZNF genes & repeats Strong transcription Genic enhancers Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	26 gene(s)	inside rSNPs	diseases
5	nsv541037	chr11:47902321-48616646	Enhancers Strong transcription Genic enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Active TSS Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	26 gene(s)	inside rSNPs	diseases
6	nsv1047490	chr11:47916708-48388686	Enhancers Weak transcription Flanking Active TSS Strong transcription Bivalent/Poised TSS Active TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
7	nsv1044266	chr11:47929586-48276132	Weak transcription ZNF genes & repeats Enhancers Flanking Active TSS Strong transcription Genic enhancers Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
8	nsv541038	chr11:47929586-48276132	Weak transcription Enhancers ZNF genes & repeats Strong transcription Genic enhancers Flanking Active TSS Active TSS Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
9	nsv1053145	chr11:47967902-48086950	Enhancers Flanking Bivalent TSS/Enh Weak transcription Bivalent Enhancer Flanking Active TSS Active TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
10	nsv870381	chr11:47989434-48142648	Enhancers Bivalent Enhancer Weak transcription Bivalent/Poised TSS Flanking Active TSS Strong transcription Genic enhancers Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	5 gene(s)	inside rSNPs	diseases
11	esv3396029	chr11:47993857-48241494	Weak transcription Strong transcription Transcr. at gene 5' and 3' Enhancers Flanking Active TSS Genic enhancers Active TSS ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	6 gene(s)	inside rSNPs	diseases
12	nsv897327	chr11:48004369-48911660	ZNF genes & repeats Enhancers Weak transcription Genic enhancers Strong transcription Flanking Active TSS Transcr. at gene 5' and 3' Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	28 gene(s)	inside rSNPs	diseases
13	nsv869124	chr11:48014539-48783113	Enhancers Weak transcription Strong transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	26 gene(s)	inside rSNPs	diseases
14	nsv1051805	chr11:48016488-48378048	Weak transcription Enhancers Genic enhancers Strong transcription Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	12 gene(s)	inside rSNPs	diseases
15	nsv428573	chr11:48032457-48152344	Genic enhancers Weak transcription ZNF genes & repeats Enhancers Strong transcription Flanking Active TSS Bivalent Enhancer Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	5 gene(s)	inside rSNPs	diseases
16	nsv897328	chr11:48043053-48901553	Strong transcription Enhancers Genic enhancers ZNF genes & repeats Weak transcription Active TSS Bivalent Enhancer Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	27 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:93 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:48035400-48046200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
2	chr11:48035600-48053000	Weak transcription	Thymus	Thymus
3	chr11:48035600-48056600	Weak transcription	HSMM	muscle
4	chr11:48037800-48046400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
5	chr11:48038000-48052400	Weak transcription	Duodenum Smooth Muscle	Duodenum
6	chr11:48039600-48046000	Weak transcription	Hela-S3	cervix
7	chr11:48040000-48046400	Weak transcription	Pancreatic Islets	Pancreatic Islet
8	chr11:48040000-48050600	Weak transcription	Rectal Smooth Muscle	rectum
9	chr11:48040000-48050800	Weak transcription	Osteobl	bone
10	chr11:48040200-48046200	Weak transcription	Stomach Smooth Muscle	stomach
11	chr11:48040600-48047200	Weak transcription	Right Ventricle	heart
12	chr11:48040600-48053200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
13	chr11:48040800-48045600	Weak transcription	Fetal Muscle Leg	muscle
14	chr11:48040800-48045800	Weak transcription	Fetal Muscle Trunk	muscle
15	chr11:48040800-48046200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
16	chr11:48040800-48050400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
17	chr11:48040800-48050400	Weak transcription	NH-A	brain
18	chr11:48040800-48050600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
19	chr11:48040800-48053000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
20	chr11:48041000-48045600	Weak transcription	Brain Germinal Matrix	brain
21	chr11:48041200-48045600	Weak transcription	Cortex derived primary cultured neurospheres	brain
22	chr11:48041200-48046000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
23	chr11:48041200-48046200	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
24	chr11:48041200-48047000	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
25	chr11:48041200-48047400	Weak transcription	HUES6 Cell Line	embryonic stem cell
26	chr11:48041200-48050400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
27	chr11:48041200-48050400	Weak transcription	H1 Cell Line	embryonic stem cell
28	chr11:48041400-48046400	Weak transcription	Fetal Stomach	stomach
29	chr11:48041400-48046400	Weak transcription	Fetal Thymus	thymus
30	chr11:48041400-48047200	Weak transcription	Placenta Amnion	Placenta Amnion
31	chr11:48041400-48050400	Weak transcription	H9 Cell Line	embryonic stem cell
32	chr11:48041400-48050600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
33	chr11:48041400-48051400	Weak transcription	Fetal Lung	lung
34	chr11:48041600-48047600	Weak transcription	Primary T cells from cord blood	blood
35	chr11:48042000-48050800	Weak transcription	Fetal Kidney	kidney
36	chr11:48042200-48045600	Weak transcription	Fetal Brain Male	brain
37	chr11:48042200-48045800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
38	chr11:48042200-48046200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
39	chr11:48042200-48046200	Enhancers	Primary B cells from cord blood	blood
40	chr11:48042200-48046200	Weak transcription	Brain Angular Gyrus	brain
41	chr11:48042200-48046200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
42	chr11:48042200-48046200	Weak transcription	Pancreas	Pancrea
43	chr11:48042200-48050400	Weak transcription	Liver	Liver
44	chr11:48042200-48050400	Weak transcription	Duodenum Mucosa	Duodenum
45	chr11:48042200-48051200	Weak transcription	Fetal Intestine Large	intestine
46	chr11:48042400-48045800	Weak transcription	Skeletal Muscle Female	skeletal muscle
47	chr11:48042400-48046000	Weak transcription	Brain Anterior Caudate	brain
48	chr11:48042400-48046200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
49	chr11:48042400-48046200	Weak transcription	Brain Cingulate Gyrus	brain
50	chr11:48042400-48046200	Weak transcription	Gastric	stomach

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