Variant report

Variant	rs12442314
Chromosome Location	chr15:52559875-52559876
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr15:52541572..52560373-chr15:52569752..52591000,64	MCF-7	breast:
2	chr15:52558601..52560230-chr15:52568252..52570073,2	MCF-7	breast:
3	chr15:52551438..52553868-chr15:52559425..52562079,2	K562	blood:

Variant related genes	Relation type
ENSG00000221052	Chromatin interaction
ENSG00000128833	Chromatin interaction

Extended variants
information (count: 8 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs17650194	1.00[AFR][1000 genomes]
rs2231291	1.00[AFR][1000 genomes]
rs3751625	1.00[AFR][1000 genomes]
rs3751628	1.00[AFR][1000 genomes]
rs754658	1.00[AFR][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	nsv1054372	chr15:52369078-52579464	Weak transcription Genic enhancers Enhancers Flanking Active TSS Strong transcription Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	27 gene(s)	inside rSNPs	diseases
2	nsv542387	chr15:52369078-52579464	Enhancers Strong transcription Genic enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	27 gene(s)	inside rSNPs	diseases
3	esv1846455	chr15:52501831-52714452	Strong transcription Enhancers Weak transcription ZNF genes & repeats Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	17 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:52524400-52579400	Weak transcription	Small Intestine	intestine
2	chr15:52549400-52567200	Weak transcription	Pancreatic Islets	Pancreatic Islet
3	chr15:52550000-52579200	Weak transcription	Fetal Kidney	kidney
4	chr15:52550200-52572200	Strong transcription	HepG2	liver
5	chr15:52553000-52562600	Strong transcription	Fetal Intestine Small	intestine
6	chr15:52553200-52575400	Strong transcription	Rectal Mucosa Donor 31	rectum
7	chr15:52554000-52569200	Weak transcription	Skeletal Muscle Female	skeletal muscle
8	chr15:52554800-52582200	Weak transcription	Rectal Smooth Muscle	rectum
9	chr15:52555000-52563800	Weak transcription	Placenta	Placenta
10	chr15:52555000-52572800	Weak transcription	Right Ventricle	heart
11	chr15:52555000-52585000	Weak transcription	Left Ventricle	heart
12	chr15:52555200-52567000	Weak transcription	Skeletal Muscle Male	skeletal muscle
13	chr15:52555200-52572800	Weak transcription	Fetal Heart	heart
14	chr15:52555200-52580600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
15	chr15:52555400-52561400	Strong transcription	Duodenum Mucosa	Duodenum
16	chr15:52555400-52563800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
17	chr15:52555400-52572600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
18	chr15:52555400-52574400	Strong transcription	HUES48 Cell Line	embryonic stem cell
19	chr15:52555400-52575800	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
20	chr15:52555600-52565000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
21	chr15:52555800-52560000	Weak transcription	Fetal Muscle Leg	muscle
22	chr15:52555800-52567400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
23	chr15:52555800-52568600	Weak transcription	Brain Angular Gyrus	brain
24	chr15:52555800-52573400	Weak transcription	Brain Cingulate Gyrus	brain
25	chr15:52555800-52574000	Weak transcription	Brain Anterior Caudate	brain
26	chr15:52555800-52575800	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
27	chr15:52555800-52576400	Weak transcription	Hela-S3	cervix
28	chr15:52556000-52561400	Strong transcription	Gastric	stomach
29	chr15:52556000-52570200	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
30	chr15:52556000-52587000	Weak transcription	Brain Hippocampus Middle	brain
31	chr15:52557000-52562400	Strong transcription	Fetal Stomach	stomach
32	chr15:52557000-52572400	Strong transcription	Cortex derived primary cultured neurospheres	brain
33	chr15:52557000-52575800	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
34	chr15:52557200-52560800	Weak transcription	Stomach Mucosa	stomach
35	chr15:52557600-52560000	Weak transcription	Primary hematopoietic stem cells short term culture	blood
36	chr15:52557600-52562800	Strong transcription	Fetal Muscle Trunk	muscle
37	chr15:52557600-52567200	Weak transcription	Lung	lung
38	chr15:52557600-52569600	Weak transcription	Adipose Nuclei	Adipose
39	chr15:52558200-52575400	Strong transcription	Rectal Mucosa Donor 29	rectum
40	chr15:52558400-52561400	Strong transcription	Colonic Mucosa	Colon
41	chr15:52558400-52572200	Strong transcription	H9 Cell Line	embryonic stem cell
42	chr15:52558400-52572200	Strong transcription	iPS-18 Cell Line	embryonic stem cell
43	chr15:52558600-52571800	Strong transcription	HUES64 Cell Line	embryonic stem cell
44	chr15:52558800-52561200	Strong transcription	Breast Myoepithelial Primary Cells	Breast
45	chr15:52558800-52562600	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
46	chr15:52558800-52565400	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
47	chr15:52558800-52572800	Strong transcription	H1 Cell Line	embryonic stem cell
48	chr15:52558800-52579400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
49	chr15:52559000-52560800	Strong transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
50	chr15:52559000-52569400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links