Variant report

Variant	rs56929920
Chromosome Location	chr15:77916630-77916631
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr15:77895225..77896761-chr15:77915510..77917012,2	K562	blood:
2	chr15:77916170..77919040-chr15:77941175..77943585,2	K562	blood:
3	chr15:77916360..77920054-chr15:77923729..77926072,4	MCF-7	breast:
4	chr15:77899424..77903075-chr15:77914224..77917029,3	K562	blood:

Variant related genes	Relation type
ENSG00000169783	Chromatin interaction

Extended variants
information (count: 58 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:48)

rs_ID	r²[population]
rs1007538	0.94[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs11852680	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11854903	0.81[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs11856978	0.97[ASN][1000 genomes]
rs11856998	0.96[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs11857045	0.96[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs16969013	0.99[AFR][1000 genomes];0.98[AMR][1000 genomes];0.94[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1877292	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1877293	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1877294	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1877295	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1877298	0.81[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs1995972	0.93[ASN][1000 genomes]
rs28501538	0.80[AFR][1000 genomes];0.86[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs28575171	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];0.86[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs28575624	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28649029	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28654794	0.97[ASN][1000 genomes]
rs28661259	0.81[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs28674549	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28684542	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28702901	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28720884	0.81[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs28733160	0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3942665	0.96[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs56037535	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56209055	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs57354334	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs60677748	0.96[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs61079432	0.93[AFR][1000 genomes];0.98[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7165679	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7171716	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7182167	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs74025322	0.94[AMR][1000 genomes];0.81[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs74025324	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs74025331	0.90[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs8023571	0.84[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs8024724	0.83[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs8024932	0.86[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs8026164	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8027456	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8027963	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9920101	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9920113	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9920127	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9920132	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9920134	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9920869	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[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	nsv1040852	chr15:77160237-78137541	Enhancers Flanking Active TSS Active TSS Strong transcription Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	42 gene(s)	inside rSNPs	diseases
2	nsv916323	chr15:77485765-78121259	Enhancers Strong transcription Weak transcription Genic enhancers Bivalent Enhancer Active TSS 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 target site	29 gene(s)	inside rSNPs	diseases
3	nsv833060	chr15:77816654-78035204	Weak transcription Bivalent Enhancer Enhancers Genic enhancers Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Strong transcription Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
4	esv1806097	chr15:77817889-78301377	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	30 gene(s)	inside rSNPs	diseases
5	nsv904415	chr15:77845959-77943935	Weak transcription Flanking Active TSS Strong transcription Enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Active TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
6	nsv904416	chr15:77845959-77967416	Enhancers Flanking Active TSS Bivalent Enhancer Weak transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Active TSS Strong transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
7	nsv904417	chr15:77851535-77935992	Weak transcription Flanking Active TSS Genic enhancers Enhancers Bivalent/Poised TSS Strong transcription Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
8	nsv904418	chr15:77851535-77963887	Weak transcription Enhancers Bivalent/Poised TSS Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
9	nsv904419	chr15:77897197-77943935	Bivalent Enhancer Enhancers Weak transcription Bivalent/Poised TSS Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
10	esv3406226	chr15:77914297-77918495	Bivalent Enhancer Weak transcription Enhancers Genic enhancers Flanking Active TSS Flanking Bivalent TSS/Enh	Chromatin interactive region	1 gene(s)	inside rSNPs	n/a

No data

Chromatin state (count:39 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:77908000-77918800	Weak transcription	Brain Germinal Matrix	brain
2	chr15:77910400-77923400	Weak transcription	Pancreas	Pancrea
3	chr15:77910600-77916800	Weak transcription	Fetal Brain Female	brain
4	chr15:77912200-77920200	Enhancers	Brain Angular Gyrus	brain
5	chr15:77913600-77923000	Enhancers	H1 Cell Line	embryonic stem cell
6	chr15:77913800-77917200	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
7	chr15:77913800-77918000	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
8	chr15:77914000-77916800	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
9	chr15:77914000-77916800	Enhancers	Fetal Muscle Trunk	muscle
10	chr15:77914000-77917200	Enhancers	HUES48 Cell Line	embryonic stem cell
11	chr15:77914000-77917200	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
12	chr15:77914000-77918000	Enhancers	Fetal Lung	lung
13	chr15:77914000-77918400	Enhancers	HUES64 Cell Line	embryonic stem cell
14	chr15:77914200-77917800	Enhancers	Fetal Heart	heart
15	chr15:77914200-77918000	Enhancers	Brain Hippocampus Middle	brain
16	chr15:77914200-77918000	Enhancers	Fetal Stomach	stomach
17	chr15:77914200-77919000	Enhancers	Brain Inferior Temporal Lobe	brain
18	chr15:77914200-77920400	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
19	chr15:77914400-77916800	Enhancers	Brain Anterior Caudate	brain
20	chr15:77914400-77917200	Enhancers	Spleen	Spleen
21	chr15:77914400-77917800	Enhancers	Brain Cingulate Gyrus	brain
22	chr15:77914400-77923200	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
23	chr15:77914800-77916800	Enhancers	H9 Cell Line	embryonic stem cell
24	chr15:77914800-77921600	Enhancers	Fetal Brain Male	brain
25	chr15:77915400-77921800	Weak transcription	Brain Substantia Nigra	brain
26	chr15:77915800-77917200	Weak transcription	Fetal Intestine Small	intestine
27	chr15:77915800-77923000	Enhancers	iPS-15b Cell Line	embryonic stem cell
28	chr15:77916000-77917000	Weak transcription	Fetal Muscle Leg	muscle
29	chr15:77916200-77916800	Enhancers	Right Ventricle	heart
30	chr15:77916400-77917000	Genic enhancers	Right Atrium	heart
31	chr15:77916400-77917600	Enhancers	HUES6 Cell Line	embryonic stem cell
32	chr15:77916400-77918400	Enhancers	K562	blood
33	chr15:77916600-77917800	Enhancers	iPS-20b Cell Line	embryonic stem cell
34	chr15:77916600-77918400	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
35	chr15:77916600-77918800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
36	chr15:77916600-77919000	Enhancers	Placenta	Placenta
37	chr15:77916600-77919400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
38	chr15:77916600-77919400	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
39	chr15:77916600-77922800	Enhancers	iPS-18 Cell Line	embryonic stem cell

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