Variant report

Variant	rs2780274
Chromosome Location	chr1:112968806-112968807
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr1:112968556..112970187-chr1:112975390..112978167,2	MCF-7	breast:
2	chr1:112967128..112969629-chr1:112981211..112983831,2	K562	blood:
3	chr1:112953235..112954889-chr1:112966803..112968841,2	MCF-7	breast:

Extended variants
information (count: 19 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:14)

rs_ID	r²[population]
rs1175624	0.80[AFR][1000 genomes]
rs1175627	1.00[YRI][hapmap];0.92[AFR][1000 genomes]
rs1175628	0.80[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1175637	1.00[YRI][hapmap];0.80[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1175639	1.00[YRI][hapmap];1.00[AFR][1000 genomes]
rs1175640	1.00[YRI][hapmap];0.80[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1175642	1.00[YRI][hapmap];0.80[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1175643	0.80[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1175644	0.92[AFR][1000 genomes]
rs1759691	0.92[AFR][1000 genomes]
rs1777621	0.80[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2483347	0.80[AFR][1000 genomes]
rs2780276	1.00[YRI][hapmap];0.80[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2798246	1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv13370	chr1:112693290-113246263	Flanking Active TSS Weak transcription Enhancers Active TSS Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer 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	87 gene(s)	inside rSNPs	diseases
2	nsv1002971	chr1:112924725-113740584	Weak transcription Enhancers Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	166 gene(s)	inside rSNPs	diseases
3	nsv535059	chr1:112924725-113740584	Enhancers Weak transcription Strong transcription Flanking Active TSS Bivalent/Poised TSS Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	166 gene(s)	inside rSNPs	diseases
4	nsv831081	chr1:112934920-113122640	Weak transcription Flanking Active TSS Active TSS Strong transcription Genic enhancers Enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	18 gene(s)	inside rSNPs	diseases
5	esv1850997	chr1:112944472-112993754	Enhancers Weak transcription Strong transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:82 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:112942400-112988200	Weak transcription	Small Intestine	intestine
2	chr1:112946800-112970600	Weak transcription	H9 Cell Line	embryonic stem cell
3	chr1:112947200-112971200	Weak transcription	Aorta	Aorta
4	chr1:112947200-112981000	Weak transcription	Rectal Smooth Muscle	rectum
5	chr1:112951200-112969000	Weak transcription	Pancreatic Islets	Pancreatic Islet
6	chr1:112952000-112969600	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
7	chr1:112952400-112990600	Weak transcription	Esophagus	oesophagus
8	chr1:112952600-112981400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
9	chr1:112957400-112986600	Weak transcription	NHLF	lung
10	chr1:112957600-112997600	Weak transcription	Brain Anterior Caudate	brain
11	chr1:112958600-112971000	Weak transcription	Right Ventricle	heart
12	chr1:112958600-112979000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
13	chr1:112959600-112973200	Weak transcription	Lung	lung
14	chr1:112959600-112991600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
15	chr1:112959800-112972000	Weak transcription	Monocytes-CD14+_RO01746	blood
16	chr1:112959800-112973400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
17	chr1:112959800-112992800	Weak transcription	Fetal Muscle Trunk	muscle
18	chr1:112960000-112972200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
19	chr1:112960000-112972800	Weak transcription	Left Ventricle	heart
20	chr1:112960000-112973200	Weak transcription	Ovary	ovary
21	chr1:112960000-112974200	Weak transcription	Placenta Amnion	Placenta Amnion
22	chr1:112960000-112980800	Weak transcription	Colon Smooth Muscle	Colon
23	chr1:112960000-112981600	Weak transcription	Liver	Liver
24	chr1:112960000-112995200	Weak transcription	Stomach Smooth Muscle	stomach
25	chr1:112960000-112996800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
26	chr1:112960200-112978200	Weak transcription	Rectal Mucosa Donor 29	rectum
27	chr1:112960200-112979000	Weak transcription	GM12878-XiMat	blood
28	chr1:112960200-112981200	Weak transcription	Duodenum Smooth Muscle	Duodenum
29	chr1:112960200-112991600	Weak transcription	Hela-S3	cervix
30	chr1:112960400-112991400	Weak transcription	HUES6 Cell Line	embryonic stem cell
31	chr1:112961200-112995600	Weak transcription	Brain Cingulate Gyrus	brain
32	chr1:112961400-112979000	Weak transcription	Brain Angular Gyrus	brain
33	chr1:112961400-112980600	Weak transcription	Brain Inferior Temporal Lobe	brain
34	chr1:112961600-112981200	Weak transcription	Fetal Brain Female	brain
35	chr1:112961800-112971000	Weak transcription	Fetal Lung	lung
36	chr1:112961800-112986800	Weak transcription	HMEC	breast
37	chr1:112962000-112979600	Weak transcription	Fetal Kidney	kidney
38	chr1:112962000-112990800	Weak transcription	Fetal Brain Male	brain
39	chr1:112962200-112976200	Weak transcription	Brain Germinal Matrix	brain
40	chr1:112962600-112990400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
41	chr1:112962600-112991600	Weak transcription	HUES48 Cell Line	embryonic stem cell
42	chr1:112964000-112982200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
43	chr1:112964200-112974200	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
44	chr1:112965000-112970000	Strong transcription	HUVEC	blood vessel
45	chr1:112965600-112978800	Weak transcription	Rectal Mucosa Donor 31	rectum
46	chr1:112965800-112971600	Weak transcription	Adipose Nuclei	Adipose
47	chr1:112965800-112975400	Weak transcription	NH-A	brain
48	chr1:112965800-112980400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
49	chr1:112965800-112983200	Weak transcription	HUES64 Cell Line	embryonic stem cell
50	chr1:112965800-112986400	Weak transcription	NHDF-Ad	bronchial

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