Variant report

Variant	rs12962774
Chromosome Location	chr18:13413066-13413067
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr18:13409251..13411085-chr18:13412554..13414452,2	MCF-7	breast:
2	chr18:13411921..13414182-chr18:13416977..13418781,2	MCF-7	breast:
3	chr18:13412861..13415349-chr18:13419308..13422616,3	MCF-7	breast:
4	chr18:13411203..13413434-chr2:218297839..218300651,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000231672	Chromatin interaction

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

rSNPs within LD-proxies of this variant (count:8)

rs_ID	r²[population]
rs12456383	0.81[EUR][1000 genomes]
rs12458775	1.00[YRI][hapmap]
rs12966088	0.98[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs17681051	1.00[YRI][hapmap]
rs2867878	1.00[YRI][hapmap]
rs4797770	1.00[EUR][1000 genomes]
rs55826319	0.88[EUR][1000 genomes]
rs7240292	0.86[CEU][hapmap];0.88[EUR][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv531246	chr18:13298774-14082028	Enhancers Weak transcription ZNF genes & repeats Active TSS Strong transcription Flanking Active TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	37 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:54 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr18:13383600-13421200	Weak transcription	Gastric	stomach
2	chr18:13385600-13420800	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
3	chr18:13388800-13416800	Weak transcription	Rectal Smooth Muscle	rectum
4	chr18:13390400-13425600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
5	chr18:13395000-13426600	Weak transcription	Brain Cingulate Gyrus	brain
6	chr18:13398800-13415800	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
7	chr18:13399000-13418000	Weak transcription	Pancreas	Pancrea
8	chr18:13401400-13416200	Weak transcription	Stomach Smooth Muscle	stomach
9	chr18:13401800-13415000	Weak transcription	Primary T helper cells PMA-I stimulated	--
10	chr18:13402200-13415400	Weak transcription	Primary T helper cells fromperipheralblood	blood
11	chr18:13402200-13415600	Weak transcription	Primary T cells fromperipheralblood	blood
12	chr18:13403400-13426400	Weak transcription	Brain Hippocampus Middle	brain
13	chr18:13403800-13416200	Weak transcription	Colon Smooth Muscle	Colon
14	chr18:13406800-13414200	Weak transcription	Psoas Muscle	Psoas
15	chr18:13406800-13414200	Weak transcription	Right Ventricle	heart
16	chr18:13407600-13427400	Weak transcription	Brain Substantia Nigra	brain
17	chr18:13407800-13414200	Weak transcription	Left Ventricle	heart
18	chr18:13409200-13415600	Weak transcription	Liver	Liver
19	chr18:13409400-13414600	Weak transcription	Small Intestine	intestine
20	chr18:13410800-13417000	Weak transcription	Stomach Mucosa	stomach
21	chr18:13411200-13416000	Weak transcription	Rectal Mucosa Donor 29	rectum
22	chr18:13411600-13414200	Weak transcription	Duodenum Mucosa	Duodenum
23	chr18:13411800-13413200	Strong transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
24	chr18:13411800-13413200	ZNF genes & repeats	Esophagus	oesophagus
25	chr18:13411800-13422000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
26	chr18:13412000-13413200	ZNF genes & repeats	Aorta	Aorta
27	chr18:13412200-13413200	Strong transcription	Thymus	Thymus
28	chr18:13412200-13414200	Strong transcription	Fetal Thymus	thymus
29	chr18:13412200-13416200	Weak transcription	Fetal Stomach	stomach
30	chr18:13412400-13413400	Strong transcription	Primary hematopoietic stem cells	blood
31	chr18:13412400-13413400	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
32	chr18:13412400-13413400	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
33	chr18:13412400-13414200	Weak transcription	Rectal Mucosa Donor 31	rectum
34	chr18:13412400-13414200	Weak transcription	Sigmoid Colon	Sigmoid Colon
35	chr18:13412400-13414800	Strong transcription	Breast Myoepithelial Primary Cells	Breast
36	chr18:13412400-13415000	Weak transcription	Dnd41	blood
37	chr18:13412400-13415200	Weak transcription	Brain Anterior Caudate	brain
38	chr18:13412400-13415400	Weak transcription	Fetal Lung	lung
39	chr18:13412600-13413200	Strong transcription	Fetal Brain Female	brain
40	chr18:13412600-13413600	Enhancers	Skeletal Muscle Female	skeletal muscle
41	chr18:13412600-13414600	Strong transcription	Primary T cells from cord blood	blood
42	chr18:13412600-13414800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
43	chr18:13412600-13414800	Weak transcription	Duodenum Smooth Muscle	Duodenum
44	chr18:13412600-13417000	Weak transcription	Brain Inferior Temporal Lobe	brain
45	chr18:13412800-13413200	Strong transcription	Brain Angular Gyrus	brain
46	chr18:13412800-13413200	ZNF genes & repeats	Fetal Intestine Small	intestine
47	chr18:13412800-13413400	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
48	chr18:13412800-13413400	Enhancers	Fetal Heart	heart
49	chr18:13412800-13413600	Weak transcription	Ovary	ovary
50	chr18:13413000-13413200	ZNF genes & repeats	Adipose Nuclei	Adipose

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