Variant report

Variant	rs56320720
Chromosome Location	chr5:73988546-73988547
allele	A/G
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	chr5:73988238-73990650	K562	blood:	n/a	n/a

No.	Distal block	Cell Line	Cell type
1	chr5:73986659..73988888-chr5:73994649..73997081,2	MCF-7	breast:
2	chr5:73979909..73982593-chr5:73987219..73990536,5	MCF-7	breast:
3	chr5:73979598..73982392-chr5:73983812..73990818,9	MCF-7	breast:
4	chr5:73979743..73983565-chr5:73984545..73990071,12	K562	blood:

Variant related genes	Relation type
HEXB	TF binding region
ENSG00000049860	Chromatin interaction

Extended variants
information (count: 22 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs10942718	0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11556045	0.82[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12517888	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12518926	0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12519436	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12521189	0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs13154639	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13178702	0.95[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13188271	0.82[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1566431	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16872206	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35711978	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3733791	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3756443	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3776484	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62368221	0.82[AFR][1000 genomes];0.97[AMR][1000 genomes];0.87[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs6453073	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7710892	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv13844	chr5:73979961-73993853	Enhancers Transcr. at gene 5' and 3' Weak transcription Strong transcription Flanking Active TSS Active TSS Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	8 gene(s)	inside rSNPs	diseases
2	nsv598652	chr5:73980182-73992881	Weak transcription Strong transcription Active TSS Flanking Active TSS Enhancers Bivalent/Poised TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	8 gene(s)	inside rSNPs	diseases
3	nsv934214	chr5:73981349-73993050	Active TSS Strong transcription Weak transcription Genic enhancers Flanking Active TSS Enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	8 gene(s)	inside rSNPs	diseases
4	nsv933165	chr5:73981599-73993050	Genic enhancers Weak transcription Active TSS Strong transcription Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:124 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:73982000-73988800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
2	chr5:73982000-73989000	Weak transcription	Fetal Muscle Trunk	muscle
3	chr5:73982000-73994400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
4	chr5:73982000-74002200	Weak transcription	Fetal Brain Female	brain
5	chr5:73982000-74017400	Weak transcription	Placenta Amnion	Placenta Amnion
6	chr5:73982000-74061800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
7	chr5:73982200-74020600	Weak transcription	Fetal Brain Male	brain
8	chr5:73982400-73989000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
9	chr5:73982400-73989200	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
10	chr5:73982400-73989200	Weak transcription	HSMMtube	muscle
11	chr5:73982400-73989600	Weak transcription	Fetal Thymus	thymus
12	chr5:73982400-73989800	Weak transcription	Thymus	Thymus
13	chr5:73982400-73993000	Weak transcription	H1 Cell Line	embryonic stem cell
14	chr5:73982400-73994600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
15	chr5:73982400-73998200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
16	chr5:73982400-73999400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
17	chr5:73982400-74002200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
18	chr5:73982600-73999400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
19	chr5:73983000-73991800	Weak transcription	Colon Smooth Muscle	Colon
20	chr5:73983000-74001000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
21	chr5:73983000-74001600	Weak transcription	H9 Cell Line	embryonic stem cell
22	chr5:73983000-74017400	Weak transcription	Primary T helper naive cells from peripheral blood	blood
23	chr5:73983000-74027000	Weak transcription	Fetal Heart	heart
24	chr5:73983200-73989000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
25	chr5:73983200-73989000	Weak transcription	Skeletal Muscle Male	skeletal muscle
26	chr5:73983200-73989200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
27	chr5:73983200-73989200	Weak transcription	Aorta	Aorta
28	chr5:73983200-73992800	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
29	chr5:73983200-73992800	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
30	chr5:73983200-73993000	Weak transcription	Pancreatic Islets	Pancreatic Islet
31	chr5:73983200-73993000	Weak transcription	GM12878-XiMat	blood
32	chr5:73983200-73994800	Weak transcription	Gastric	stomach
33	chr5:73983200-74002200	Weak transcription	Esophagus	oesophagus
34	chr5:73983200-74030200	Weak transcription	Small Intestine	intestine
35	chr5:73983400-73988600	Weak transcription	Cortex derived primary cultured neurospheres	brain
36	chr5:73983400-73988600	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
37	chr5:73983400-73988800	Weak transcription	Pancreas	Pancrea
38	chr5:73983400-73988800	Weak transcription	NH-A	brain
39	chr5:73983400-73989000	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
40	chr5:73983400-73989000	Weak transcription	Brain Anterior Caudate	brain
41	chr5:73983400-73989600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
42	chr5:73983400-73992800	Weak transcription	Stomach Mucosa	stomach
43	chr5:73983400-73999000	Weak transcription	Colonic Mucosa	Colon
44	chr5:73983400-73999200	Weak transcription	Psoas Muscle	Psoas
45	chr5:73983400-74016000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
46	chr5:73984400-74002200	Strong transcription	Primary monocytes fromperipheralblood	blood
47	chr5:73984600-73989000	Strong transcription	NHDF-Ad	bronchial
48	chr5:73984600-73989400	Strong transcription	K562	blood
49	chr5:73984600-73990200	Strong transcription	Primary hematopoietic stem cells	blood
50	chr5:73984600-73990200	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell

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