Variant report

Variant	rs56938279
Chromosome Location	chr15:41716254-41716255
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr15:41711628..41713417-chr15:41713793..41716319,2	MCF-7	breast:
2	chr15:41696582..41698091-chr15:41714638..41716887,2	MCF-7	breast:

Extended variants
information (count: 33 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:26)

rs_ID	r²[population]
rs34979001	0.89[AFR][1000 genomes]
rs55643943	0.91[AFR][1000 genomes]
rs55882121	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs56145951	0.80[AFR][1000 genomes]
rs56301417	0.87[AFR][1000 genomes]
rs56660190	0.87[AFR][1000 genomes]
rs58148245	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs58964563	0.89[AFR][1000 genomes]
rs59836577	0.89[AFR][1000 genomes]
rs60753819	0.93[AFR][1000 genomes]
rs7162242	0.89[AFR][1000 genomes]
rs7166617	0.89[AFR][1000 genomes]
rs7167144	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7168910	0.89[AFR][1000 genomes]
rs7171744	0.83[AFR][1000 genomes]
rs74012276	0.82[AFR][1000 genomes]
rs74012285	0.96[AFR][1000 genomes]
rs74012287	0.80[AFR][1000 genomes]
rs74012293	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs74012294	0.87[AFR][1000 genomes]
rs74012298	0.91[AFR][1000 genomes]
rs8027761	0.93[AFR][1000 genomes]
rs8028208	0.82[AFR][1000 genomes]
rs8037253	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs8039556	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs8040920	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1044438	chr15:41560160-41745480	Strong transcription Transcr. at gene 5' and 3' Active TSS ZNF genes & repeats Enhancers Genic enhancers Weak transcription Flanking Active TSS Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	85 gene(s)	inside rSNPs	diseases
2	nsv1038923	chr15:41585028-41754890	Strong transcription Active TSS Flanking Active TSS Weak transcription Enhancers Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	66 gene(s)	inside rSNPs	diseases
3	nsv1045142	chr15:41585044-41738314	Weak transcription Flanking Active TSS Active TSS Enhancers ZNF genes & repeats Strong transcription Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	66 gene(s)	inside rSNPs	diseases
4	nsv1039283	chr15:41620499-41745480	Enhancers Active TSS Strong transcription Weak transcription Flanking Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	63 gene(s)	inside rSNPs	diseases
5	nsv933757	chr15:41641236-41773058	Weak transcription Enhancers Strong transcription Active TSS Genic enhancers Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	27 gene(s)	inside rSNPs	diseases
6	nsv524476	chr15:41689232-41820200	Flanking Active TSS Enhancers Weak transcription Strong transcription Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers Active TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	31 gene(s)	inside rSNPs	diseases
7	nsv569232	chr15:41694377-41730246	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Strong transcription Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	25 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:105 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:41710400-41724600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
2	chr15:41710400-41745200	Weak transcription	Esophagus	oesophagus
3	chr15:41710400-41750000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
4	chr15:41710600-41717000	Weak transcription	Fetal Stomach	stomach
5	chr15:41710600-41721200	Weak transcription	Rectal Mucosa Donor 31	rectum
6	chr15:41710600-41721200	Weak transcription	Right Atrium	heart
7	chr15:41710600-41723800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
8	chr15:41710600-41723800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
9	chr15:41710600-41729800	Weak transcription	Brain Substantia Nigra	brain
10	chr15:41710600-41731600	Weak transcription	Placenta Amnion	Placenta Amnion
11	chr15:41710600-41731600	Weak transcription	Skeletal Muscle Female	skeletal muscle
12	chr15:41710600-41731800	Weak transcription	Brain Inferior Temporal Lobe	brain
13	chr15:41710600-41733600	Weak transcription	Skeletal Muscle Male	skeletal muscle
14	chr15:41710600-41745200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
15	chr15:41710800-41716400	Weak transcription	Rectal Mucosa Donor 29	rectum
16	chr15:41710800-41718800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
17	chr15:41710800-41718800	Weak transcription	HUES6 Cell Line	embryonic stem cell
18	chr15:41710800-41718800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
19	chr15:41710800-41718800	Weak transcription	HMEC	breast
20	chr15:41710800-41718800	Weak transcription	NH-A	brain
21	chr15:41710800-41718800	Weak transcription	NHLF	lung
22	chr15:41710800-41720800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
23	chr15:41710800-41720800	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
24	chr15:41710800-41721200	Weak transcription	Sigmoid Colon	Sigmoid Colon
25	chr15:41710800-41724200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
26	chr15:41710800-41724800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
27	chr15:41710800-41724800	Weak transcription	HUES64 Cell Line	embryonic stem cell
28	chr15:41710800-41726600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
29	chr15:41710800-41727800	Weak transcription	HUES48 Cell Line	embryonic stem cell
30	chr15:41710800-41729800	Weak transcription	Brain Cingulate Gyrus	brain
31	chr15:41710800-41729800	Weak transcription	Psoas Muscle	Psoas
32	chr15:41710800-41730200	Weak transcription	Fetal Intestine Large	intestine
33	chr15:41710800-41730600	Weak transcription	Muscle Satellite Cultured Cells	--
34	chr15:41710800-41731600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
35	chr15:41710800-41731800	Weak transcription	Left Ventricle	heart
36	chr15:41710800-41733400	Weak transcription	Brain Hippocampus Middle	brain
37	chr15:41710800-41733400	Weak transcription	HSMMtube	muscle
38	chr15:41711000-41718800	Weak transcription	HSMM	muscle
39	chr15:41711000-41729800	Weak transcription	Placenta	Placenta
40	chr15:41711000-41730200	Weak transcription	Adipose Nuclei	Adipose
41	chr15:41711000-41730600	Weak transcription	Osteobl	bone
42	chr15:41711200-41718800	Weak transcription	Fetal Muscle Trunk	muscle
43	chr15:41711200-41721200	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
44	chr15:41711200-41722600	Weak transcription	Fetal Muscle Leg	muscle
45	chr15:41711200-41723800	Weak transcription	Primary monocytes fromperipheralblood	blood
46	chr15:41711200-41724000	Weak transcription	Thymus	Thymus
47	chr15:41711200-41724400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
48	chr15:41711200-41727800	Weak transcription	Fetal Thymus	thymus
49	chr15:41711400-41718800	Weak transcription	Primary T cells from cord blood	blood
50	chr15:41711400-41723600	Weak transcription	Fetal Intestine Small	intestine

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