Variant report

Variant	rs13022175
Chromosome Location	chr2:20306581-20306582
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr2:20299695..20307724-chr2:20421846..20426859,15	MCF-7	breast:
2	chr2:20306020..20309024-chr2:20421635..20424090,4	MCF-7	breast:
3	chr2:20306351..20307044-chr2:20424834..20425592,2	MCF-7	breast:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-LAPTM4A-2	chr2:20306501-20306590	XLOC_002008

Variant related genes	Relation type
ENSG00000115884	Chromatin interaction

Extended variants
information (count: 9 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs16987379	1.00[CEU][hapmap];0.86[CHB][hapmap];1.00[JPT][hapmap];0.94[YRI][hapmap];0.98[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs56097005	0.81[ASN][1000 genomes]
rs62112178	0.80[ASN][1000 genomes]
rs6531203	0.84[YRI][hapmap]
rs73919270	0.87[AMR][1000 genomes];0.81[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7578149	1.00[CEU][hapmap];0.81[CHB][hapmap];0.91[JPT][hapmap];0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7582437	0.94[YRI][hapmap]
rs7585046	0.89[CEU][hapmap];0.90[JPT][hapmap];0.89[AMR][1000 genomes];0.85[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs907864	0.94[YRI][hapmap]

No data

Chromatin state (count:63 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:20298400-20307800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr2:20303600-20307000	Enhancers	Esophagus	oesophagus
3	chr2:20304600-20306800	Weak transcription	Fetal Lung	lung
4	chr2:20304800-20308600	Weak transcription	Liver	Liver
5	chr2:20305200-20307200	Weak transcription	HepG2	liver
6	chr2:20305200-20308600	Weak transcription	Rectal Mucosa Donor 31	rectum
7	chr2:20305800-20306600	ZNF genes & repeats	Placenta	Placenta
8	chr2:20305800-20310200	Weak transcription	Gastric	stomach
9	chr2:20306000-20308600	Weak transcription	Stomach Mucosa	stomach
10	chr2:20306200-20306600	Bivalent Enhancer	Fetal Muscle Leg	muscle
11	chr2:20306200-20306800	Bivalent/Poised TSS	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
12	chr2:20306200-20306800	Active TSS	HUES6 Cell Line	embryonic stem cell
13	chr2:20306200-20307000	Active TSS	H9 Cell Line	embryonic stem cell
14	chr2:20306200-20307000	Active TSS	HUES64 Cell Line	embryonic stem cell
15	chr2:20306200-20307000	Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
16	chr2:20306200-20307000	Bivalent/Poised TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
17	chr2:20306200-20307000	Active TSS	Foreskin Keratinocyte Primary Cells skin03	Skin
18	chr2:20306200-20307000	Bivalent/Poised TSS	Stomach Smooth Muscle	stomach
19	chr2:20306200-20307000	Active TSS	NHEK	skin
20	chr2:20306200-20307200	Bivalent/Poised TSS	ES-WA7 Cell Line	embryonic stem cell
21	chr2:20306200-20307400	Bivalent/Poised TSS	ES-I3 Cell Line	embryonic stem cell
22	chr2:20306400-20306600	Flanking Bivalent TSS/Enh	H1 Cell Line	embryonic stem cell
23	chr2:20306400-20306600	Flanking Active TSS	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
24	chr2:20306400-20306600	Flanking Bivalent TSS/Enh	Foreskin Fibroblast Primary Cells skin02	Skin
25	chr2:20306400-20306600	Flanking Active TSS	Foreskin Keratinocyte Primary Cells skin02	Skin
26	chr2:20306400-20306600	Bivalent Enhancer	Primary mononuclear cells fromperipheralblood	Blood
27	chr2:20306400-20306600	Flanking Active TSS	Adipose Nuclei	Adipose
28	chr2:20306400-20306600	Bivalent/Poised TSS	Brain Hippocampus Middle	brain
29	chr2:20306400-20306600	Active TSS	Colon Smooth Muscle	Colon
30	chr2:20306400-20306600	Enhancers	Rectal Smooth Muscle	rectum
31	chr2:20306400-20306600	Active TSS	Right Ventricle	heart
32	chr2:20306400-20306600	Enhancers	NHDF-Ad	bronchial
33	chr2:20306400-20306800	Flanking Active TSS	iPS DF 19.11 Cell Line	embryonic stem cell
34	chr2:20306400-20306800	Active TSS	Breast Myoepithelial Primary Cells	Breast
35	chr2:20306400-20306800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
36	chr2:20306400-20306800	Flanking Bivalent TSS/Enh	Foreskin Fibroblast Primary Cells skin01	Skin
37	chr2:20306400-20306800	Flanking Active TSS	Foreskin Melanocyte Primary Cells skin03	Skin
38	chr2:20306400-20306800	Bivalent/Poised TSS	Brain Inferior Temporal Lobe	brain
39	chr2:20306400-20306800	Bivalent/Poised TSS	Duodenum Smooth Muscle	Duodenum
40	chr2:20306400-20306800	Active TSS	Fetal Intestine Large	intestine
41	chr2:20306400-20306800	Bivalent Enhancer	Fetal Muscle Trunk	muscle
42	chr2:20306400-20306800	Enhancers	Lung	lung
43	chr2:20306400-20306800	Bivalent/Poised TSS	Psoas Muscle	Psoas
44	chr2:20306400-20306800	Enhancers	Spleen	Spleen
45	chr2:20306400-20306800	Enhancers	HUVEC	blood vessel
46	chr2:20306400-20307000	Bivalent/Poised TSS	HUES48 Cell Line	embryonic stem cell
47	chr2:20306400-20307000	Flanking Active TSS	IMR90 fetal lung fibroblasts Cell Line	lung
48	chr2:20306400-20307000	Bivalent/Poised TSS	iPS-15b Cell Line	embryonic stem cell
49	chr2:20306400-20307000	Bivalent/Poised TSS	iPS-18 Cell Line	embryonic stem cell
50	chr2:20306400-20307000	Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived

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