Variant report

Variant	rs17883377
Chromosome Location	chr19:39400187-39400188
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr19:39398838..39403067-chr19:39419638..39422578,4	MCF-7	breast:
2	chr19:39339924..39344199-chr19:39398243..39400684,3	MCF-7	breast:
3	chr19:39398169..39400794-chr19:39403289..39404909,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000128626	Chromatin interaction
ENSG00000104824	Chromatin interaction
ENSG00000104835	Chromatin interaction

Extended variants
information (count: 14 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:11)

rs_ID	r²[population]
rs10411224	1.00[EUR][1000 genomes]
rs10415871	1.00[EUR][1000 genomes]
rs11881837	1.00[EUR][1000 genomes]
rs28414024	1.00[EUR][1000 genomes]
rs28698570	1.00[EUR][1000 genomes]
rs28842622	1.00[EUR][1000 genomes]
rs58287865	1.00[EUR][1000 genomes]
rs7250688	1.00[EUR][1000 genomes]
rs73545566	1.00[EUR][1000 genomes]
rs73930246	1.00[EUR][1000 genomes]
rs8103029	1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1057899	chr19:39088319-39475493	Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Weak transcription Transcr. at gene 5' and 3' Enhancers Bivalent Enhancer Active TSS Strong transcription Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	82 gene(s)	inside rSNPs	diseases
2	esv1837023	chr19:39190588-39425722	Active TSS Enhancers Weak transcription Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	65 gene(s)	inside rSNPs	diseases
3	nsv911677	chr19:39395654-39404457	Strong transcription Weak transcription Enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats Flanking Active TSS Genic enhancers Bivalent/Poised TSS Active TSS	TF binding region CpG island Chromatin interactive region	7 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:112 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr19:39391200-39420800	Weak transcription	Small Intestine	intestine
2	chr19:39391400-39402200	Weak transcription	Fetal Brain Male	brain
3	chr19:39391600-39414800	Weak transcription	HMEC	breast
4	chr19:39391600-39420600	Weak transcription	Right Atrium	heart
5	chr19:39391800-39400400	Weak transcription	Pancreatic Islets	Pancreatic Islet
6	chr19:39391800-39401800	Weak transcription	Fetal Lung	lung
7	chr19:39391800-39412200	Weak transcription	Osteobl	bone
8	chr19:39392400-39414800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
9	chr19:39392600-39406000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
10	chr19:39392600-39414600	Weak transcription	Primary T killer memory cells from peripheral blood	blood
11	chr19:39392600-39418800	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
12	chr19:39393600-39400200	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
13	chr19:39393800-39400200	Strong transcription	Primary B cells from cord blood	blood
14	chr19:39394000-39401200	Strong transcription	Fetal Intestine Small	intestine
15	chr19:39394200-39401200	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
16	chr19:39394600-39401200	Strong transcription	Fetal Stomach	stomach
17	chr19:39394800-39400200	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
18	chr19:39394800-39400200	Strong transcription	Dnd41	blood
19	chr19:39394800-39401000	Strong transcription	Gastric	stomach
20	chr19:39394800-39401800	Strong transcription	Breast Myoepithelial Primary Cells	Breast
21	chr19:39395000-39400200	Strong transcription	Duodenum Mucosa	Duodenum
22	chr19:39395000-39400200	Strong transcription	Lung	lung
23	chr19:39395000-39400400	Strong transcription	Brain Inferior Temporal Lobe	brain
24	chr19:39395000-39400400	Strong transcription	Fetal Muscle Trunk	muscle
25	chr19:39395000-39400400	Strong transcription	Stomach Smooth Muscle	stomach
26	chr19:39395000-39401000	Strong transcription	Adipose Nuclei	Adipose
27	chr19:39395000-39401200	Strong transcription	Skeletal Muscle Female	skeletal muscle
28	chr19:39395000-39401400	Strong transcription	Skeletal Muscle Male	skeletal muscle
29	chr19:39395000-39401600	Strong transcription	Fetal Muscle Leg	muscle
30	chr19:39395200-39400200	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
31	chr19:39395200-39400200	Strong transcription	Colonic Mucosa	Colon
32	chr19:39395200-39400800	Strong transcription	Thymus	Thymus
33	chr19:39395200-39401000	Strong transcription	Brain Hippocampus Middle	brain
34	chr19:39395200-39401200	Strong transcription	Right Ventricle	heart
35	chr19:39395400-39400400	Strong transcription	Esophagus	oesophagus
36	chr19:39395600-39400200	Strong transcription	Sigmoid Colon	Sigmoid Colon
37	chr19:39395600-39414800	Weak transcription	Primary hematopoietic stem cells	blood
38	chr19:39395600-39415000	Weak transcription	Hela-S3	cervix
39	chr19:39395800-39400200	Strong transcription	Liver	Liver
40	chr19:39396600-39402400	Weak transcription	Placenta Amnion	Placenta Amnion
41	chr19:39396600-39408400	Weak transcription	HepG2	liver
42	chr19:39396800-39401800	Weak transcription	iPS-20b Cell Line	embryonic stem cell
43	chr19:39396800-39401800	Weak transcription	Stomach Mucosa	stomach
44	chr19:39396800-39412000	Weak transcription	iPS-18 Cell Line	embryonic stem cell
45	chr19:39397000-39412200	Weak transcription	HUES48 Cell Line	embryonic stem cell
46	chr19:39397400-39400800	Strong transcription	Fetal Brain Female	brain
47	chr19:39397600-39400200	ZNF genes & repeats	H9 Derived Neuron Cultured Cells	ES cell derived
48	chr19:39397600-39400200	ZNF genes & repeats	Foreskin Fibroblast Primary Cells skin01	Skin
49	chr19:39398000-39412400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
50	chr19:39398000-39420600	Weak transcription	Psoas Muscle	Psoas

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