Variant report

Variant	rs1909122
Chromosome Location	chr4:106127004-106127005
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr4:106112171..106113904-chr4:106125859..106128359,2	MCF-7	breast:
2	chr4:106066798..106071531-chr4:106121174..106128252,9	MCF-7	breast:

Variant related genes	Relation type
ENSG00000168769	Chromatin interaction

Extended variants
information (count: 13 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:9)

rs_ID	r²[population]
rs1015521	0.85[AMR][1000 genomes];0.91[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs1391438	0.85[AMR][1000 genomes];0.82[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs1391441	0.85[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2047408	0.86[AMR][1000 genomes];0.91[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2647230	0.82[ASN][1000 genomes]
rs2726458	0.85[ASN][1000 genomes]
rs2726518	0.86[ASN][1000 genomes]
rs6533182	0.92[AMR][1000 genomes];0.91[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7655890	0.84[EUR][1000 genomes];0.88[ASN][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	nsv461609	chr4:105869548-106366209	Weak transcription Strong transcription Genic enhancers Enhancers ZNF genes & repeats Active TSS Transcr. at gene 5' and 3' Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	37 gene(s)	inside rSNPs	diseases
2	nsv470063	chr4:105869548-106366209	Transcr. at gene 5' and 3' Strong transcription Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Genic enhancers Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	37 gene(s)	inside rSNPs	diseases
3	nsv595007	chr4:105869548-106366209	Weak transcription ZNF genes & repeats Strong transcription Flanking Active TSS Enhancers Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	37 gene(s)	inside rSNPs	diseases
4	nsv830025	chr4:105988876-106137946	Enhancers Weak transcription Active TSS ZNF genes & repeats Strong transcription Flanking Active TSS Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	26 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:77 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:106084800-106127400	Weak transcription	Brain Germinal Matrix	brain
2	chr4:106101000-106146600	Weak transcription	Spleen	Spleen
3	chr4:106102800-106127400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
4	chr4:106106000-106135000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
5	chr4:106106200-106155000	Weak transcription	Primary T cells fromperipheralblood	blood
6	chr4:106111800-106127400	Weak transcription	Brain Inferior Temporal Lobe	brain
7	chr4:106112200-106127200	Weak transcription	Primary T cells from cord blood	blood
8	chr4:106112800-106127400	Weak transcription	Placenta	Placenta
9	chr4:106113000-106127200	Weak transcription	Fetal Muscle Trunk	muscle
10	chr4:106113000-106154800	Weak transcription	Fetal Thymus	thymus
11	chr4:106113200-106136000	Weak transcription	Brain Anterior Caudate	brain
12	chr4:106113200-106136000	Weak transcription	Brain Substantia Nigra	brain
13	chr4:106113200-106136800	Weak transcription	Fetal Kidney	kidney
14	chr4:106113200-106146600	Weak transcription	Primary T helper cells fromperipheralblood	blood
15	chr4:106113600-106136000	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
16	chr4:106113600-106173800	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
17	chr4:106113600-106195800	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
18	chr4:106114400-106129000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
19	chr4:106114400-106136200	Weak transcription	Rectal Mucosa Donor 29	rectum
20	chr4:106114400-106155200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
21	chr4:106114600-106127400	Weak transcription	Right Ventricle	heart
22	chr4:106114600-106127400	Weak transcription	Sigmoid Colon	Sigmoid Colon
23	chr4:106114600-106127400	Weak transcription	Skeletal Muscle Female	skeletal muscle
24	chr4:106114600-106134400	Weak transcription	Liver	Liver
25	chr4:106114600-106136000	Weak transcription	Pancreas	Pancrea
26	chr4:106114600-106145400	Weak transcription	Adipose Nuclei	Adipose
27	chr4:106114600-106155600	Weak transcription	Esophagus	oesophagus
28	chr4:106116400-106130000	Weak transcription	HMEC	breast
29	chr4:106116400-106131600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
30	chr4:106117600-106136000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
31	chr4:106118000-106136200	Weak transcription	Brain Hippocampus Middle	brain
32	chr4:106118000-106136800	Weak transcription	HSMMtube	muscle
33	chr4:106118000-106155400	Weak transcription	Duodenum Mucosa	Duodenum
34	chr4:106118200-106135600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
35	chr4:106118400-106135800	Weak transcription	Primary T helper cells PMA-I stimulated	--
36	chr4:106118800-106127200	Weak transcription	Left Ventricle	heart
37	chr4:106118800-106127400	Weak transcription	Primary B cells from cord blood	blood
38	chr4:106118800-106128600	Weak transcription	Skeletal Muscle Male	skeletal muscle
39	chr4:106118800-106131400	Weak transcription	Fetal Intestine Small	intestine
40	chr4:106118800-106131400	Weak transcription	Rectal Mucosa Donor 31	rectum
41	chr4:106118800-106131600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
42	chr4:106118800-106135000	Weak transcription	Primary hematopoietic stem cells short term culture	blood
43	chr4:106118800-106136000	Weak transcription	NH-A	brain
44	chr4:106118800-106136800	Weak transcription	Fetal Intestine Large	intestine
45	chr4:106118800-106136800	Weak transcription	Rectal Smooth Muscle	rectum
46	chr4:106118800-106137000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
47	chr4:106118800-106155000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
48	chr4:106118800-106155200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
49	chr4:106119000-106135800	Weak transcription	HSMM	muscle
50	chr4:106119400-106131600	Weak transcription	NHEK	skin

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