Variant report

Variant	rs56298468
Chromosome Location	chr14:31378255-31378256
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr14:31376657..31378769-chr14:31384602..31386523,2	MCF-7	breast:
2	chr14:31357417..31359632-chr14:31378177..31380284,2	K562	blood:

Variant related genes	Relation type
ENSG00000258525	Chromatin interaction

Extended variants
information (count: 22 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:12)

rs_ID	r²[population]
rs10483360	0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13122	1.00[ASN][1000 genomes]
rs1474802	0.84[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs17097503	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs17097524	0.96[AFR][1000 genomes];0.84[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs45536734	0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs45600940	0.92[AFR][1000 genomes];0.84[AMR][1000 genomes];0.84[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs4981084	0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55956948	0.84[AFR][1000 genomes];0.84[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs59048919	0.86[AFR][1000 genomes];0.84[AMR][1000 genomes];0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7140646	0.84[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs8022619	0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:10 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv564169	chr14:30819087-31541494	Strong transcription Genic enhancers ZNF genes & repeats Enhancers Weak transcription Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	50 gene(s)	inside rSNPs	diseases
2	nsv901581	chr14:30978745-31585289	Strong transcription Weak transcription Enhancers Genic enhancers Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	50 gene(s)	inside rSNPs	diseases
3	nsv832762	chr14:31238634-31414038	Strong transcription Bivalent Enhancer Enhancers Bivalent/Poised TSS Weak transcription Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Flanking Active TSS Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
4	nsv564173	chr14:31358377-31400682	Weak transcription Strong transcription Enhancers Genic enhancers ZNF genes & repeats Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
5	nsv901584	chr14:31358377-31409010	Strong transcription Weak transcription Enhancers Genic enhancers Flanking Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
6	nsv564174	chr14:31365884-31400682	Weak transcription Strong transcription Enhancers Genic enhancers ZNF genes & repeats Flanking Active TSS	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
7	nsv564175	chr14:31365884-31409010	Strong transcription Weak transcription Genic enhancers Enhancers Flanking Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
8	nsv564176	chr14:31365884-31413492	Weak transcription Strong transcription Enhancers Genic enhancers Flanking Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
9	nsv901585	chr14:31365884-31433473	Weak transcription Enhancers Strong transcription Genic enhancers ZNF genes & repeats Flanking Active TSS	TF binding region CpG island Chromatin interactive region	5 gene(s)	inside rSNPs	diseases
10	nsv901586	chr14:31365884-31465241	Strong transcription Weak transcription Enhancers Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs56298468	STRN3	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:125 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr14:31345000-31435400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
2	chr14:31345400-31382600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
3	chr14:31346600-31382600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
4	chr14:31347000-31384600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
5	chr14:31347000-31394800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
6	chr14:31355200-31378400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
7	chr14:31355800-31414400	Weak transcription	Spleen	Spleen
8	chr14:31356200-31378800	Weak transcription	Brain Germinal Matrix	brain
9	chr14:31356200-31412800	Weak transcription	Primary T killer memory cells from peripheral blood	blood
10	chr14:31358000-31428200	Weak transcription	Small Intestine	intestine
11	chr14:31358400-31378400	Weak transcription	Aorta	Aorta
12	chr14:31360200-31435600	Weak transcription	Gastric	stomach
13	chr14:31360400-31381800	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
14	chr14:31361200-31379400	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
15	chr14:31361600-31380600	Weak transcription	Stomach Mucosa	stomach
16	chr14:31361600-31384400	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
17	chr14:31361800-31394200	Weak transcription	Fetal Brain Male	brain
18	chr14:31362000-31381400	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
19	chr14:31362200-31378800	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
20	chr14:31362200-31414400	Weak transcription	Primary T helper naive cells from peripheral blood	blood
21	chr14:31362400-31435400	Weak transcription	Colonic Mucosa	Colon
22	chr14:31362600-31382400	Strong transcription	Liver	Liver
23	chr14:31363000-31379200	Weak transcription	Fetal Heart	heart
24	chr14:31363000-31394400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
25	chr14:31363000-31430600	Weak transcription	Brain Angular Gyrus	brain
26	chr14:31363000-31435200	Weak transcription	Esophagus	oesophagus
27	chr14:31363400-31383000	Weak transcription	Placenta Amnion	Placenta Amnion
28	chr14:31363800-31381400	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
29	chr14:31364400-31415400	Weak transcription	H9 Cell Line	embryonic stem cell
30	chr14:31364800-31379000	Weak transcription	Fetal Kidney	kidney
31	chr14:31364800-31393200	Weak transcription	Brain Substantia Nigra	brain
32	chr14:31365200-31378600	Weak transcription	Brain Hippocampus Middle	brain
33	chr14:31365600-31380000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
34	chr14:31365600-31380400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
35	chr14:31365600-31381000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
36	chr14:31365800-31378400	Weak transcription	Rectal Smooth Muscle	rectum
37	chr14:31365800-31378600	Weak transcription	Skeletal Muscle Male	skeletal muscle
38	chr14:31365800-31402200	Weak transcription	Thymus	Thymus
39	chr14:31365800-31414200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
40	chr14:31365800-31435600	Weak transcription	Right Ventricle	heart
41	chr14:31367000-31381600	Strong transcription	Primary monocytes fromperipheralblood	blood
42	chr14:31367600-31381600	Strong transcription	Monocytes-CD14+_RO01746	blood
43	chr14:31368200-31380200	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
44	chr14:31369800-31381800	Strong transcription	iPS-20b Cell Line	embryonic stem cell
45	chr14:31370000-31381400	Strong transcription	iPS-18 Cell Line	embryonic stem cell
46	chr14:31370000-31381600	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
47	chr14:31370000-31381800	Strong transcription	HUES48 Cell Line	embryonic stem cell
48	chr14:31370000-31393600	Weak transcription	Lung	lung
49	chr14:31370000-31414400	Weak transcription	Pancreas	Pancrea
50	chr14:31370400-31381600	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood

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