Variant report

Variant	rs2724932
Chromosome Location	chr15:42247004-42247005
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr15:42236796..42238369-chr15:42246623..42249098,2	K562	blood:
2	chr15:42246088..42249209-chr15:42256409..42259537,4	K562	blood:
3	chr15:42245990..42247904-chr15:42263451..42265953,3	K562	blood:
4	chr15:42245990..42248159-chr15:42261990..42265953,4	K562	blood:
5	chr15:42246217..42248184-chr15:42249664..42252463,2	K562	blood:
6	chr15:42240156..42243766-chr15:42245737..42248177,3	MCF-7	breast:
7	chr15:42245397..42247652-chr15:42344878..42346983,2	K562	blood:

Variant related genes	Relation type
ENSG00000103966	Chromatin interaction
ENSG00000246740	Chromatin interaction

Extended variants
information (count: 37 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:29)

rs_ID	r²[population]
rs1025227	1.00[EUR][1000 genomes]
rs1030417	1.00[EUR][1000 genomes]
rs1197656	1.00[EUR][1000 genomes]
rs1197676	1.00[EUR][1000 genomes]
rs1197678	1.00[EUR][1000 genomes]
rs1197695	1.00[EUR][1000 genomes]
rs1197696	1.00[EUR][1000 genomes]
rs1197698	1.00[EUR][1000 genomes]
rs1201692	1.00[EUR][1000 genomes]
rs1451047	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1530836	1.00[EUR][1000 genomes]
rs1559882	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1614205	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1621597	1.00[EUR][1000 genomes]
rs1648808	1.00[EUR][1000 genomes]
rs1648812	1.00[EUR][1000 genomes]
rs1648819	1.00[EUR][1000 genomes]
rs1648820	1.00[EUR][1000 genomes]
rs1668566	1.00[EUR][1000 genomes]
rs1668590	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1668591	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1704408	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1704409	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2665209	1.00[EUR][1000 genomes]
rs57032192	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73410628	1.00[EUR][1000 genomes]
rs890497	1.00[EUR][1000 genomes]
rs890499	1.00[EUR][1000 genomes]
rs890500	1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv931223	chr15:41989960-42781757	Enhancers Weak transcription Strong transcription Flanking Active TSS Genic enhancers Bivalent Enhancer Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	81 gene(s)	inside rSNPs	diseases
2	nsv427958	chr15:42051317-42301283	Strong transcription Weak transcription Enhancers Active TSS Bivalent Enhancer Genic enhancers Flanking Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	45 gene(s)	inside rSNPs	diseases
3	nsv1035998	chr15:42098896-42434254	Weak transcription Enhancers Strong transcription Active TSS Flanking Active TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	38 gene(s)	inside rSNPs	diseases
4	nsv1038933	chr15:42138456-42309087	Weak transcription Enhancers Genic enhancers Strong transcription Bivalent Enhancer Flanking Active TSS Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	30 gene(s)	inside rSNPs	diseases
5	nsv529687	chr15:42157320-42621682	Weak transcription Strong transcription Enhancers Active TSS Flanking Active TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	59 gene(s)	inside rSNPs	diseases
6	nsv1054728	chr15:42177772-42310009	Enhancers Genic enhancers Weak transcription Bivalent Enhancer Strong transcription Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases
7	nsv1049445	chr15:42239738-42830484	Enhancers Strong transcription Weak transcription Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	73 gene(s)	inside rSNPs	diseases
8	nsv542366	chr15:42239738-42830484	Weak transcription Active TSS Enhancers Strong transcription Bivalent Enhancer Flanking Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	73 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:114 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:42222200-42249800	Weak transcription	Brain Inferior Temporal Lobe	brain
2	chr15:42227600-42249200	Weak transcription	Small Intestine	intestine
3	chr15:42230000-42248400	Strong transcription	GM12878-XiMat	blood
4	chr15:42230000-42249600	Weak transcription	K562	blood
5	chr15:42230400-42262200	Weak transcription	Thymus	Thymus
6	chr15:42230800-42249400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
7	chr15:42231200-42249800	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
8	chr15:42231600-42250000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
9	chr15:42238200-42250200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
10	chr15:42239600-42247400	Weak transcription	Psoas Muscle	Psoas
11	chr15:42240200-42248000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
12	chr15:42240400-42251800	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
13	chr15:42240400-42252600	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
14	chr15:42241000-42249600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
15	chr15:42241200-42259200	Weak transcription	Brain Anterior Caudate	brain
16	chr15:42242000-42250800	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
17	chr15:42242400-42247400	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
18	chr15:42242400-42249000	Strong transcription	Primary monocytes fromperipheralblood	blood
19	chr15:42242600-42251200	Strong transcription	Monocytes-CD14+_RO01746	blood
20	chr15:42242800-42248000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
21	chr15:42242800-42249600	Weak transcription	Primary hematopoietic stem cells short term culture	blood
22	chr15:42243000-42247800	Weak transcription	Fetal Kidney	kidney
23	chr15:42243000-42248000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
24	chr15:42243000-42252000	Weak transcription	A549	lung
25	chr15:42243200-42248000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
26	chr15:42243200-42248000	Weak transcription	Fetal Lung	lung
27	chr15:42243400-42249200	Weak transcription	Stomach Mucosa	stomach
28	chr15:42243800-42250000	Weak transcription	Primary B cells from cord blood	blood
29	chr15:42244200-42247800	Weak transcription	Colon Smooth Muscle	Colon
30	chr15:42244200-42247800	Strong transcription	NHLF	lung
31	chr15:42244200-42253200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
32	chr15:42244200-42259400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
33	chr15:42244400-42249000	Weak transcription	Brain Cingulate Gyrus	brain
34	chr15:42244400-42260600	Weak transcription	Duodenum Smooth Muscle	Duodenum
35	chr15:42244600-42248000	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
36	chr15:42244600-42250000	Weak transcription	Rectal Smooth Muscle	rectum
37	chr15:42244800-42247400	Weak transcription	Right Atrium	heart
38	chr15:42244800-42248000	Weak transcription	Placenta Amnion	Placenta Amnion
39	chr15:42244800-42248200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
40	chr15:42244800-42250400	Weak transcription	Brain Hippocampus Middle	brain
41	chr15:42245000-42247400	Weak transcription	Skeletal Muscle Male	skeletal muscle
42	chr15:42245600-42248000	Weak transcription	HepG2	liver
43	chr15:42245800-42247400	Weak transcription	Pancreas	Pancrea
44	chr15:42245800-42247600	Weak transcription	Skeletal Muscle Female	skeletal muscle
45	chr15:42245800-42247600	Weak transcription	NHDF-Ad	bronchial
46	chr15:42245800-42249400	Weak transcription	NH-A	brain
47	chr15:42245800-42250200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
48	chr15:42245800-42253000	Weak transcription	Muscle Satellite Cultured Cells	--
49	chr15:42246000-42247400	Weak transcription	Gastric	stomach
50	chr15:42246000-42247800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived

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