Variant report

Variant	rs541815644
Chromosome Location	chr3:46707999-46708000
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:9)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:9 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr3:46706471..46710183-chr3:46732042..46737071,8	MCF-7	breast:
2	chr3:46650273..46651172-chr3:46707945..46708857,6	MCF-7	breast:
3	chr3:46650273..46651172-chr3:46707945..46708857,7	MCF-7	breast:
4	chr3:46707872..46708784-chr3:46734766..46735318,2	MCF-7	breast:
5	chr3:46707418..46709371-chr3:46712225..46713806,2	K562	blood:
6	chr3:46707782..46708419-chr3:46950685..46951647,2	MCF-7	breast:
7	chr3:46706098..46708257-chr3:46728561..46731134,2	MCF-7	breast:
8	chr3:46707887..46708803-chr3:46920018..46920840,3	MCF-7	breast:
9	chr3:46707530..46709982-chr3:46711149..46714588,3	K562	blood:

No data

Variant related genes	Relation type
ENSG00000178038	Chromatin interaction

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

Variant overlapped rSNPs/rCNVs (count:15 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1007449	chr3:46652343-46986578	Bivalent Enhancer Weak transcription Transcr. at gene 5' and 3' Enhancers ZNF genes & repeats Genic enhancers Strong transcription Bivalent/Poised TSS Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	30 gene(s)	inside rSNPs	diseases
2	nsv536554	chr3:46652343-46986578	Enhancers Weak transcription Bivalent Enhancer Genic enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS ZNF genes & repeats Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	30 gene(s)	inside rSNPs	diseases
3	nsv876739	chr3:46656980-46744966	Enhancers Flanking Active TSS Weak transcription Bivalent Enhancer Bivalent/Poised TSS Active TSS Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
4	nsv876740	chr3:46656980-46748453	Active TSS Weak transcription Enhancers Bivalent Enhancer Flanking Active TSS Strong transcription 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	19 gene(s)	inside rSNPs	diseases
5	nsv876741	chr3:46663372-46763839	Enhancers Flanking Active TSS Weak transcription Strong transcription Active TSS Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	19 gene(s)	inside rSNPs	diseases
6	nsv516623	chr3:46680063-46852679	Enhancers Strong transcription Genic enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	19 gene(s)	inside rSNPs	diseases
7	esv2757869	chr3:46680452-46972489	Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Strong transcription Weak transcription Active TSS Bivalent Enhancer Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	28 gene(s)	inside rSNPs	diseases
8	esv2759147	chr3:46680452-46972489	Genic enhancers Flanking Active TSS Enhancers Strong transcription Bivalent/Poised TSS Weak transcription Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	28 gene(s)	inside rSNPs	diseases
9	esv1804680	chr3:46704348-46869911	Bivalent Enhancer Flanking Active TSS Weak transcription Bivalent/Poised TSS Enhancers Flanking Bivalent TSS/Enh Strong transcription Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	20 gene(s)	inside rSNPs	diseases
10	nsv876742	chr3:46705369-46763839	Flanking Bivalent TSS/Enh Enhancers Weak transcription Bivalent Enhancer Genic enhancers Active TSS Flanking Active TSS Strong transcription Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	16 gene(s)	inside rSNPs	diseases
11	nsv536555	chr3:46706571-46817963	Flanking Active TSS Strong transcription Genic enhancers Bivalent Enhancer Weak transcription Enhancers Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
12	nsv536556	chr3:46706571-46849443	Genic enhancers Bivalent/Poised TSS Weak transcription Enhancers Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Strong transcription Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
13	nsv536557	chr3:46706571-46853434	Bivalent Enhancer Flanking Active TSS Weak transcription Genic enhancers Strong transcription ZNF genes & repeats Enhancers Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	19 gene(s)	inside rSNPs	diseases
14	nsv536558	chr3:46706571-47024756	Enhancers Bivalent Enhancer Active TSS Strong transcription Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	35 gene(s)	inside rSNPs	diseases
15	nsv10268	chr3:46707169-46736718	Enhancers Flanking Active TSS Weak transcription Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	15 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:38 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:46700800-46710400	Bivalent Enhancer	Fetal Muscle Trunk	muscle
2	chr3:46701600-46709200	Enhancers	Right Ventricle	heart
3	chr3:46702800-46732400	Weak transcription	Psoas Muscle	Psoas
4	chr3:46703000-46711600	Weak transcription	Esophagus	oesophagus
5	chr3:46703000-46731600	Weak transcription	Hela-S3	cervix
6	chr3:46703400-46709400	Enhancers	Left Ventricle	heart
7	chr3:46703800-46709200	Enhancers	Right Atrium	heart
8	chr3:46704200-46708800	Enhancers	Fetal Heart	heart
9	chr3:46704200-46712400	Weak transcription	Rectal Mucosa Donor 29	rectum
10	chr3:46705000-46711400	Weak transcription	HMEC	breast
11	chr3:46705200-46708600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
12	chr3:46705400-46711800	Weak transcription	Adipose Nuclei	Adipose
13	chr3:46705400-46711800	Weak transcription	Placenta	Placenta
14	chr3:46705400-46712400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
15	chr3:46705400-46713400	Weak transcription	Colonic Mucosa	Colon
16	chr3:46705400-46715000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
17	chr3:46705400-46732600	Weak transcription	Duodenum Smooth Muscle	Duodenum
18	chr3:46705400-46734400	Weak transcription	Ovary	ovary
19	chr3:46705600-46710800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
20	chr3:46705800-46714600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
21	chr3:46705800-46714800	Weak transcription	HUES6 Cell Line	embryonic stem cell
22	chr3:46705800-46717000	Weak transcription	Brain Anterior Caudate	brain
23	chr3:46706000-46717400	Weak transcription	Brain Angular Gyrus	brain
24	chr3:46706200-46708000	Weak transcription	Lung	lung
25	chr3:46706200-46709200	Weak transcription	Spleen	Spleen
26	chr3:46706400-46708000	Weak transcription	HSMMtube	muscle
27	chr3:46706800-46712200	Weak transcription	Skeletal Muscle Female	skeletal muscle
28	chr3:46707200-46708000	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
29	chr3:46707200-46709000	Enhancers	Liver	Liver
30	chr3:46707200-46709200	Enhancers	Pancreas	Pancrea
31	chr3:46707200-46710800	Enhancers	Fetal Intestine Large	intestine
32	chr3:46707200-46717000	Weak transcription	Brain Inferior Temporal Lobe	brain
33	chr3:46707600-46708000	Enhancers	Stomach Smooth Muscle	stomach
34	chr3:46707600-46708600	Enhancers	Colon Smooth Muscle	Colon
35	chr3:46707600-46709000	Enhancers	Gastric	stomach
36	chr3:46707800-46708200	Enhancers	Fetal Muscle Leg	muscle
37	chr3:46707800-46708400	Enhancers	Rectal Smooth Muscle	rectum
38	chr3:46707800-46708800	Enhancers	Fetal Intestine Small	intestine

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