Variant report

Variant	rs2921955
Chromosome Location	chr15:52334647-52334648
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:9)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:9 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr15:52326795..52330431-chr15:52332202..52336988,5	K562	blood:
2	chr15:52310288..52313422-chr15:52332456..52335210,3	K562	blood:
3	chr15:52317535..52326388-chr15:52327451..52335331,11	K562	blood:
4	chr15:52326795..52330431-chr15:52334288..52336988,4	K562	blood:
5	chr15:52332465..52334999-chr15:52337431..52339850,2	K562	blood:
6	chr15:52310288..52312356-chr15:52333090..52335210,2	K562	blood:
7	chr15:52331117..52335082-chr15:52360597..52363150,3	K562	blood:
8	chr15:52308807..52313747-chr15:52329198..52338033,19	MCF-7	breast:
9	chr15:52333359..52335753-chr15:52337024..52338910,2	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000069956	Chromatin interaction
ENSG00000259438	Chromatin interaction
ENSG00000259398	Chromatin interaction

Extended variants
information (count: 12 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:7)

rs_ID	r²[population]
rs2414124	1.00[LWK][hapmap];1.00[YRI][hapmap];0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2414125	1.00[YRI][hapmap];0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2470598	0.93[LWK][hapmap];1.00[YRI][hapmap];1.00[AMR][1000 genomes]
rs2554335	0.87[YRI][hapmap]
rs2921952	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2959282	1.00[YRI][hapmap];0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7167709	0.94[LWK][hapmap];1.00[YRI][hapmap];0.83[AFR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1047260	chr15:52257100-52337418	Weak transcription Enhancers ZNF genes & repeats Strong transcription Genic enhancers Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	48 gene(s)	inside rSNPs	diseases
2	nsv1050664	chr15:52265723-52342101	Genic enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Enhancers Active TSS Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	38 gene(s)	inside rSNPs	diseases
3	nsv530681	chr15:52297253-52390470	Weak transcription Flanking Active TSS Strong transcription Enhancers Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	41 gene(s)	inside rSNPs	diseases
4	nsv471244	chr15:52305463-52511465	Enhancers Strong transcription Weak transcription Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	52 gene(s)	inside rSNPs	diseases
5	nsv984198	chr15:52319726-52481137	Weak transcription Enhancers Genic enhancers ZNF genes & repeats Flanking Active TSS Active TSS Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs2921955	PLP2	trans	lymphoblastoid	seeQTL

Chromatin state (count:122 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:52312800-52345400	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
2	chr15:52314400-52359800	Weak transcription	Fetal Brain Male	brain
3	chr15:52325800-52342200	Weak transcription	HUVEC	blood vessel
4	chr15:52326800-52342800	Weak transcription	Fetal Brain Female	brain
5	chr15:52327000-52337200	Weak transcription	Primary B cells from cord blood	blood
6	chr15:52327000-52340600	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
7	chr15:52327600-52340200	Weak transcription	Fetal Muscle Trunk	muscle
8	chr15:52329800-52334800	Enhancers	Sigmoid Colon	Sigmoid Colon
9	chr15:52330000-52335400	Enhancers	HepG2	liver
10	chr15:52330600-52335400	Enhancers	Pancreas	Pancrea
11	chr15:52331000-52335400	Genic enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
12	chr15:52331200-52334800	Genic enhancers	NHEK	skin
13	chr15:52331200-52335000	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
14	chr15:52331400-52335400	Enhancers	Brain Angular Gyrus	brain
15	chr15:52331800-52335400	Enhancers	Ovary	ovary
16	chr15:52332000-52334800	Enhancers	HUES48 Cell Line	embryonic stem cell
17	chr15:52332400-52348200	Weak transcription	Colonic Mucosa	Colon
18	chr15:52332600-52338200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
19	chr15:52332600-52340400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
20	chr15:52332600-52342400	Weak transcription	NHDF-Ad	bronchial
21	chr15:52332600-52349000	Weak transcription	Esophagus	oesophagus
22	chr15:52332600-52349400	Weak transcription	H9 Cell Line	embryonic stem cell
23	chr15:52332600-52350800	Weak transcription	Aorta	Aorta
24	chr15:52332600-52361800	Weak transcription	Gastric	stomach
25	chr15:52332800-52335400	Enhancers	Brain Substantia Nigra	brain
26	chr15:52332800-52336600	Weak transcription	Primary T helper naive cells from peripheral blood	blood
27	chr15:52332800-52339600	Weak transcription	Fetal Intestine Large	intestine
28	chr15:52332800-52340400	Weak transcription	Brain Germinal Matrix	brain
29	chr15:52332800-52340400	Weak transcription	Placenta	Placenta
30	chr15:52332800-52344400	Weak transcription	Placenta Amnion	Placenta Amnion
31	chr15:52333000-52334800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
32	chr15:52333000-52336600	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
33	chr15:52333000-52336600	Weak transcription	Primary T helper cells fromperipheralblood	blood
34	chr15:52333000-52336600	Weak transcription	Primary T killer memory cells from peripheral blood	blood
35	chr15:52333000-52337400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
36	chr15:52333000-52337600	Weak transcription	Primary monocytes fromperipheralblood	blood
37	chr15:52333000-52337600	Weak transcription	Primary T cells fromperipheralblood	blood
38	chr15:52333000-52337800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
39	chr15:52333000-52337800	Weak transcription	Monocytes-CD14+_RO01746	blood
40	chr15:52333000-52338000	Weak transcription	Thymus	Thymus
41	chr15:52333000-52338200	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
42	chr15:52333000-52338200	Weak transcription	Fetal Thymus	thymus
43	chr15:52333000-52338800	Weak transcription	NHLF	lung
44	chr15:52333000-52339000	Weak transcription	Fetal Intestine Small	intestine
45	chr15:52333000-52339000	Weak transcription	Fetal Lung	lung
46	chr15:52333000-52339000	Weak transcription	Fetal Muscle Leg	muscle
47	chr15:52333000-52339200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
48	chr15:52333000-52339400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
49	chr15:52333000-52339600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
50	chr15:52333000-52340200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived

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