Variant report

Variant	rs62345058
Chromosome Location	chr5:14475587-14475588
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	POLR2A	chr5:14473731-14479703	U87	brain:	n/a	n/a
2	POLR2A	chr5:14475555-14475589	HepG2	liver:	n/a	n/a
3	POLR2A	chr5:14469339-14485909	U87	brain:	n/a	n/a
4	POLR2A	chr5:14467946-14476667	U87	brain:	n/a	n/a
5	POLR2A	chr5:14470521-14476667	U87	brain:	n/a	n/a
6	POLR2A	chr5:14475349-14475645	SK-N-SH	brain:	n/a	n/a

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr5:14456335..14458466-chr5:14474447..14476907,2	MCF-7	breast:

Variant related genes	Relation type
TRIO	TF binding region

Extended variants
information (count: 24 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:18)

rs_ID	r²[population]
rs17500731	1.00[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs17500808	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs32527	0.84[AMR][1000 genomes]
rs3898746	0.82[AMR][1000 genomes]
rs62345057	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs62345059	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs62345860	0.87[EUR][1000 genomes]
rs62345871	0.87[EUR][1000 genomes]
rs62345872	0.87[EUR][1000 genomes]
rs62345873	0.87[EUR][1000 genomes]
rs62345874	0.87[EUR][1000 genomes]
rs62345875	0.87[EUR][1000 genomes]
rs62345879	0.87[EUR][1000 genomes]
rs62345881	0.87[EUR][1000 genomes]
rs62345882	0.87[EUR][1000 genomes]
rs62345883	0.87[EUR][1000 genomes]
rs6863759	0.87[EUR][1000 genomes]
rs6891562	0.87[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1026914	chr5:14237782-14751588	Weak transcription Transcr. at gene 5' and 3' Strong transcription Flanking Active TSS Enhancers Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	37 gene(s)	inside rSNPs	diseases
2	nsv1018187	chr5:14385164-15127103	Strong transcription Flanking Bivalent TSS/Enh Weak transcription Enhancers Genic enhancers Active TSS Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	61 gene(s)	inside rSNPs	diseases
3	nsv461981	chr5:14426611-14509903	Weak transcription Active TSS Enhancers Strong transcription Genic enhancers Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region miRNA target site	4 gene(s)	inside rSNPs	diseases
4	nsv597240	chr5:14426611-14509903	Weak transcription Strong transcription Genic enhancers Flanking Active TSS Enhancers ZNF genes & repeats Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region miRNA target site	4 gene(s)	inside rSNPs	diseases
5	nsv4725	chr5:14469602-14514446	Weak transcription Strong transcription Genic enhancers Enhancers Transcr. at gene 5' and 3' Flanking Active TSS ZNF genes & repeats Active TSS	TF binding region CpG island Chromatin interactive region miRNA target site	4 gene(s)	inside rSNPs	diseases
6	nsv830211	chr5:14474675-14675776	Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	33 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:110 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:14446800-14511400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
2	chr5:14450800-14509000	Strong transcription	Primary B cells from peripheral blood	blood
3	chr5:14458200-14509200	Strong transcription	Cortex derived primary cultured neurospheres	brain
4	chr5:14458400-14490000	Strong transcription	Adipose Nuclei	Adipose
5	chr5:14458600-14490400	Strong transcription	Fetal Stomach	stomach
6	chr5:14458800-14509000	Strong transcription	Liver	Liver
7	chr5:14458800-14510600	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
8	chr5:14459400-14508800	Strong transcription	HUES64 Cell Line	embryonic stem cell
9	chr5:14459400-14509000	Strong transcription	Breast Myoepithelial Primary Cells	Breast
10	chr5:14460600-14490600	Strong transcription	Stomach Smooth Muscle	stomach
11	chr5:14460800-14476000	Strong transcription	Duodenum Smooth Muscle	Duodenum
12	chr5:14463200-14481200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
13	chr5:14464200-14475800	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
14	chr5:14464400-14487800	Strong transcription	Fetal Intestine Large	intestine
15	chr5:14464800-14475600	Strong transcription	Osteobl	bone
16	chr5:14464800-14487400	Strong transcription	Primary B cells from cord blood	blood
17	chr5:14464800-14511400	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
18	chr5:14465200-14475800	Strong transcription	NHLF	lung
19	chr5:14465200-14487600	Strong transcription	A549	lung
20	chr5:14465200-14488800	Strong transcription	Primary hematopoietic stem cells short term culture	blood
21	chr5:14465200-14494400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
22	chr5:14465400-14477000	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
23	chr5:14465400-14483800	Strong transcription	Rectal Mucosa Donor 29	rectum
24	chr5:14465600-14487800	Strong transcription	HUES6 Cell Line	embryonic stem cell
25	chr5:14465800-14483600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
26	chr5:14466200-14476800	Strong transcription	Monocytes-CD14+_RO01746	blood
27	chr5:14466200-14486200	Strong transcription	Primary monocytes fromperipheralblood	blood
28	chr5:14466400-14480800	Weak transcription	Thymus	Thymus
29	chr5:14466400-14481200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
30	chr5:14466600-14480800	Weak transcription	Psoas Muscle	Psoas
31	chr5:14468000-14483600	Strong transcription	Sigmoid Colon	Sigmoid Colon
32	chr5:14468200-14483800	Strong transcription	Rectal Mucosa Donor 31	rectum
33	chr5:14468200-14509000	Strong transcription	Ovary	ovary
34	chr5:14468400-14511000	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
35	chr5:14469400-14475800	Strong transcription	Fetal Intestine Small	intestine
36	chr5:14470000-14486800	Strong transcription	Fetal Muscle Trunk	muscle
37	chr5:14470200-14486800	Strong transcription	Fetal Muscle Leg	muscle
38	chr5:14470400-14476000	Strong transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
39	chr5:14470400-14476600	Strong transcription	HSMM	muscle
40	chr5:14470400-14487400	Strong transcription	HUES48 Cell Line	embryonic stem cell
41	chr5:14470400-14487400	Strong transcription	iPS-20b Cell Line	embryonic stem cell
42	chr5:14470600-14486000	Strong transcription	iPS-18 Cell Line	embryonic stem cell
43	chr5:14470600-14486400	Strong transcription	Fetal Kidney	kidney
44	chr5:14470600-14490600	Strong transcription	Duodenum Mucosa	Duodenum
45	chr5:14470600-14509000	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
46	chr5:14470600-14509800	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
47	chr5:14470800-14476600	Strong transcription	Rectal Smooth Muscle	rectum
48	chr5:14470800-14479600	Strong transcription	GM12878-XiMat	blood
49	chr5:14470800-14486600	Strong transcription	Brain Anterior Caudate	brain
50	chr5:14470800-14488600	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--

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