Variant report

Variant	rs3798475
Chromosome Location	chr6:36953391-36953392
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:11)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:11 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr6:36930754..36936310-chr6:36950773..36956274,7	MCF-7	breast:
2	chr6:36952074..36956895-chr6:36967839..36978010,11	MCF-7	breast:
3	chr6:36952261..36954341-chr6:37137585..37140214,3	K562	blood:
4	chr6:36911927..36913902-chr6:36952339..36954357,2	MCF-7	breast:
5	chr6:36950922..36953739-chr6:37176914..37178749,2	MCF-7	breast:
6	chr6:36852278..36855515-chr6:36952430..36957026,4	MCF-7	breast:
7	chr6:36929829..36933522-chr6:36953197..36956380,5	MCF-7	breast:
8	chr6:36934908..36939247-chr6:36952489..36955593,6	MCF-7	breast:
9	chr6:36952431..36954730-chr6:36980411..36983158,3	MCF-7	breast:
10	chr1:181057607..181058228-chr6:36953385..36954212,2	NB4	blood:
11	chr6:36838369..36843263-chr6:36951921..36955568,5	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000232598	Chromatin interaction
ENSG00000137409	Chromatin interaction
ENSG00000146192	Chromatin interaction
ENSG00000137168	Chromatin interaction
ENSG00000198663	Chromatin interaction
ENSG00000164530	Chromatin interaction
ENSG00000137193	Chromatin interaction
ENSG00000162783	Chromatin interaction

Extended variants
information (count: 15 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:6)

rs_ID	r²[population]
rs11751297	0.90[AMR][1000 genomes];0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11759019	0.86[AMR][1000 genomes];0.84[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs16868759	0.89[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs3798477	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs726819	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9380629	0.94[AFR][1000 genomes];0.89[AMR][1000 genomes];0.85[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:9 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1030015	chr6:36818510-37104446	Active TSS Enhancers Flanking Active TSS Weak transcription Genic enhancers Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	41 gene(s)	inside rSNPs	diseases
2	nsv916833	chr6:36826524-37029833	Enhancers Active TSS Strong transcription Bivalent Enhancer Flanking Active TSS Weak transcription Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	38 gene(s)	inside rSNPs	diseases
3	nsv885815	chr6:36915906-36979583	Active TSS Flanking Active TSS Genic enhancers Enhancers Weak transcription Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases
4	nsv5263	chr6:36941625-36972109	Flanking Active TSS Weak transcription Active TSS Strong transcription Enhancers Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	22 gene(s)	inside rSNPs	diseases
5	nsv518386	chr6:36942746-37037670	Weak transcription Enhancers Strong transcription Flanking Active TSS Genic enhancers Bivalent Enhancer Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	28 gene(s)	inside rSNPs	diseases
6	nsv602952	chr6:36951210-36978745	Flanking Active TSS Active TSS Enhancers Weak transcription Strong transcription Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases
7	esv19906	chr6:36951876-36955062	Flanking Active TSS Active TSS Enhancers Bivalent/Poised TSS Weak transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region	22 gene(s)	inside rSNPs	diseases
8	esv3404117	chr6:36952499-36955347	Flanking Active TSS Active TSS Enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' Weak transcription	TF binding region CpG island Chromatin interactive region	22 gene(s)	inside rSNPs	diseases
9	nsv602953	chr6:36953091-36954082	Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	21 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:127 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:36951400-36953400	Flanking Active TSS	Stomach Smooth Muscle	stomach
2	chr6:36951600-36953400	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
3	chr6:36951800-36953400	Flanking Active TSS	Primary T cells from cord blood	blood
4	chr6:36951800-36953400	Flanking Active TSS	Primary hematopoietic stem cells	blood
5	chr6:36951800-36953400	Flanking Active TSS	Skeletal Muscle Female	skeletal muscle
6	chr6:36952000-36953400	Flanking Active TSS	Adipose Nuclei	Adipose
7	chr6:36952200-36953400	Flanking Active TSS	Primary T cells fromperipheralblood	blood
8	chr6:36952200-36953400	Flanking Active TSS	Primary hematopoietic stem cells short term culture	blood
9	chr6:36952200-36953400	Flanking Active TSS	Primary T helper cells fromperipheralblood	blood
10	chr6:36952200-36953400	Flanking Active TSS	Fetal Brain Female	brain
11	chr6:36952200-36953600	Active TSS	Foreskin Fibroblast Primary Cells skin02	Skin
12	chr6:36952200-36954600	Active TSS	IMR90 fetal lung fibroblasts Cell Line	lung
13	chr6:36952200-36955200	Active TSS	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
14	chr6:36952200-36955200	Active TSS	Foreskin Melanocyte Primary Cells skin01	Skin
15	chr6:36952400-36953400	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Female	--
16	chr6:36952400-36953800	Flanking Active TSS	Primary B cells from cord blood	blood
17	chr6:36952400-36954400	Active TSS	ES-UCSF4 Cell Line	embryonic stem cell
18	chr6:36952400-36954800	Flanking Active TSS	Primary mononuclear cells fromperipheralblood	Blood
19	chr6:36952400-36954800	Active TSS	A549	lung
20	chr6:36952400-36955000	Active TSS	Ovary	ovary
21	chr6:36952400-36955200	Active TSS	Pancreatic Islets	Pancreatic Islet
22	chr6:36952600-36953400	Flanking Active TSS	Primary monocytes fromperipheralblood	blood
23	chr6:36952600-36953400	Flanking Active TSS	Primary neutrophils fromperipheralblood	blood
24	chr6:36952600-36953400	Flanking Active TSS	Primary B cells from peripheral blood	blood
25	chr6:36952600-36953400	Flanking Active TSS	Primary Natural Killer cells fromperipheralblood	blood
26	chr6:36952600-36953800	Active TSS	iPS DF 19.11 Cell Line	embryonic stem cell
27	chr6:36952600-36954400	Active TSS	Primary T cells effector/memory enriched fromperipheralblood	blood
28	chr6:36952600-36954600	Active TSS	H1 Derived Mesenchymal Stem Cells	ES cell derived
29	chr6:36952600-36954600	Active TSS	iPS-18 Cell Line	embryonic stem cell
30	chr6:36952600-36954600	Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
31	chr6:36952600-36954600	Active TSS	Muscle Satellite Cultured Cells	--
32	chr6:36952600-36954600	Active TSS	NHLF	lung
33	chr6:36952600-36954800	Active TSS	ES-WA7 Cell Line	embryonic stem cell
34	chr6:36952600-36954800	Active TSS	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
35	chr6:36952600-36954800	Active TSS	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
36	chr6:36952600-36954800	Active TSS	HUES48 Cell Line	embryonic stem cell
37	chr6:36952600-36954800	Active TSS	iPS-15b Cell Line	embryonic stem cell
38	chr6:36952600-36954800	Active TSS	iPS DF 6.9 Cell Line	embryonic stem cell
39	chr6:36952600-36954800	Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
40	chr6:36952600-36954800	Active TSS	Aorta	Aorta
41	chr6:36952600-36954800	Active TSS	Rectal Smooth Muscle	rectum
42	chr6:36952600-36954800	Active TSS	GM12878-XiMat	blood
43	chr6:36952600-36954800	Active TSS	NHDF-Ad	bronchial
44	chr6:36952600-36955000	Active TSS	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
45	chr6:36952600-36955000	Active TSS	Lung	lung
46	chr6:36952600-36955400	Active TSS	ES-I3 Cell Line	embryonic stem cell
47	chr6:36952600-36955400	Active TSS	H9 Cell Line	embryonic stem cell
48	chr6:36952600-36955400	Active TSS	HUES64 Cell Line	embryonic stem cell
49	chr6:36952600-36955400	Active TSS	Fetal Muscle Trunk	muscle
50	chr6:36952800-36953400	Flanking Active TSS	K562	blood

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