Variant report

Variant	rs4501106
Chromosome Location	chr3:118934228-118934229
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 9 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:5)

rs_ID	r²[population]
rs12493956	0.84[AMR][1000 genomes]
rs4284973	0.85[AMR][1000 genomes]
rs4422292	0.97[AFR][1000 genomes];0.88[AMR][1000 genomes]
rs4568125	0.84[AMR][1000 genomes]
rs6784208	0.97[AFR][1000 genomes];0.88[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3487859	chr3:118570588-119419623	Weak transcription Active TSS Strong transcription Enhancers Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	61 gene(s)	inside rSNPs	diseases
2	esv3487860	chr3:118570588-119419623	Strong transcription Enhancers Active TSS Weak transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	61 gene(s)	inside rSNPs	diseases
3	esv18354	chr3:118855337-119000251	Enhancers Genic enhancers Strong transcription Flanking Active TSS Weak transcription Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
4	nsv591362	chr3:118906442-118948155	Weak transcription Strong transcription Flanking Active TSS Genic enhancers Enhancers ZNF genes & repeats Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs4501106	IGSF11	cis	lung	GTEx

Chromatin state (count:126 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:118904600-118936400	Weak transcription	Gastric	stomach
2	chr3:118915200-118934800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
3	chr3:118924400-118959000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
4	chr3:118924600-118945600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
5	chr3:118926200-118939400	Strong transcription	Rectal Mucosa Donor 29	rectum
6	chr3:118926600-118937000	Weak transcription	Pancreatic Islets	Pancreatic Islet
7	chr3:118926600-118937600	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
8	chr3:118926800-118934400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
9	chr3:118927000-118943200	Strong transcription	Primary hematopoietic stem cells short term culture	blood
10	chr3:118927000-118952600	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
11	chr3:118927000-118953800	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
12	chr3:118927000-118953800	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
13	chr3:118927200-118937400	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
14	chr3:118927200-118939800	Strong transcription	Liver	Liver
15	chr3:118927200-118943000	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
16	chr3:118927200-118953800	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
17	chr3:118927200-118955200	Strong transcription	Monocytes-CD14+_RO01746	blood
18	chr3:118927400-118935800	Strong transcription	HSMM	muscle
19	chr3:118927400-118937800	Strong transcription	Duodenum Mucosa	Duodenum
20	chr3:118927400-118941200	Strong transcription	Placenta	Placenta
21	chr3:118927400-118950200	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
22	chr3:118927400-118953000	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
23	chr3:118927600-118952400	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
24	chr3:118927800-118939200	Strong transcription	Primary hematopoietic stem cells	blood
25	chr3:118927800-118940600	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
26	chr3:118927800-118943400	Strong transcription	Fetal Muscle Trunk	muscle
27	chr3:118927800-118956400	Strong transcription	iPS-20b Cell Line	embryonic stem cell
28	chr3:118928000-118937000	Strong transcription	Primary T cells fromperipheralblood	blood
29	chr3:118928000-118943000	Strong transcription	Fetal Muscle Leg	muscle
30	chr3:118928000-118955600	Strong transcription	Breast Myoepithelial Primary Cells	Breast
31	chr3:118928200-118939200	Strong transcription	Placenta Amnion	Placenta Amnion
32	chr3:118928200-118940000	Strong transcription	Brain Hippocampus Middle	brain
33	chr3:118928200-118943200	Strong transcription	Fetal Stomach	stomach
34	chr3:118928200-118943400	Strong transcription	Adipose Nuclei	Adipose
35	chr3:118928200-118951000	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
36	chr3:118928400-118940200	Strong transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
37	chr3:118928800-118937400	Strong transcription	Primary T helper cells fromperipheralblood	blood
38	chr3:118928800-118937800	Strong transcription	Brain Anterior Caudate	brain
39	chr3:118928800-118950000	Strong transcription	Primary monocytes fromperipheralblood	blood
40	chr3:118929000-118937800	Strong transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
41	chr3:118929000-118938200	Strong transcription	GM12878-XiMat	blood
42	chr3:118929000-118938400	Strong transcription	Cortex derived primary cultured neurospheres	brain
43	chr3:118929000-118939800	Strong transcription	Skeletal Muscle Female	skeletal muscle
44	chr3:118929000-118943000	Strong transcription	Skeletal Muscle Male	skeletal muscle
45	chr3:118929000-118943200	Strong transcription	Left Ventricle	heart
46	chr3:118929000-118943600	Strong transcription	Primary neutrophils fromperipheralblood	blood
47	chr3:118929000-118944200	Strong transcription	Duodenum Smooth Muscle	Duodenum
48	chr3:118929200-118956200	Strong transcription	HUES48 Cell Line	embryonic stem cell
49	chr3:118929200-118956200	Strong transcription	HUES64 Cell Line	embryonic stem cell
50	chr3:118929200-118956400	Strong transcription	H1 Cell Line	embryonic stem cell

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