Variant report

Variant	rs556458448
Chromosome Location	chr3:191046980-191046981
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr3:190999845..191001643-chr3:191046703..191048798,2	MCF-7	breast:
2	chr3:191032916..191035495-chr3:191046200..191047748,2	MCF-7	breast:
3	chr16:8962585..8963523-chr3:191046236..191047148,2	Hela-S3	cervix:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-GMNC-5	chr3:191046593-191047101	NONHSAT093964

Variant related genes	Relation type
ENSG00000153048	Chromatin interaction
ENSG00000261481	Chromatin interaction
ENSG00000188958	Chromatin interaction

Extended variants
information (count: 12 )
Associated
traits (count: 0)

Variant overlapped rSNPs/rCNVs (count:12 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv428100	chr3:190793797-191092633	Enhancers Strong transcription Active TSS Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
2	nsv931943	chr3:190860224-191321873	Weak transcription Enhancers Genic enhancers Flanking Active TSS Strong transcription Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
3	esv2757910	chr3:190867011-191279107	Weak transcription Enhancers Strong transcription Active TSS Flanking Active TSS Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
4	esv2759209	chr3:190867011-191279107	Weak transcription Active TSS Flanking Active TSS Enhancers Transcr. at gene 5' and 3' Strong transcription Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
5	nsv878101	chr3:190891939-191059322	Enhancers Active TSS Flanking Active TSS Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
6	nsv428428	chr3:190936834-191215596	Weak transcription Enhancers Strong transcription Flanking Active TSS Genic enhancers Active TSS Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
7	nsv998208	chr3:191021434-191175350	Strong transcription Enhancers Weak transcription Active TSS Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
8	esv1851611	chr3:191028147-191073560	Weak transcription Enhancers Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
9	nsv4169	chr3:191036298-191063465	Weak transcription Active TSS Enhancers Flanking Active TSS Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
10	nsv534269	chr3:191037181-191261730	Flanking Bivalent TSS/Enh Weak transcription Enhancers Strong transcription Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats Active TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
11	esv3325773	chr3:191046083-191048631	Enhancers Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Flanking Active TSS Weak transcription Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
12	nsv10370	chr3:191046223-191049560	Enhancers Active TSS Bivalent Enhancer Flanking Active TSS Bivalent/Poised TSS Weak transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:122 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:191046200-191047000	Flanking Active TSS	H9 Derived Neuron Cultured Cells	ES cell derived
2	chr3:191046200-191047000	Flanking Active TSS	Skeletal Muscle Male	skeletal muscle
3	chr3:191046200-191047000	Flanking Active TSS	Hela-S3	cervix
4	chr3:191046200-191049200	Active TSS	Brain Angular Gyrus	brain
5	chr3:191046200-191049800	Active TSS	Foreskin Fibroblast Primary Cells skin02	Skin
6	chr3:191046200-191049800	Active TSS	Stomach Smooth Muscle	stomach
7	chr3:191046400-191047000	Flanking Active TSS	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
8	chr3:191046400-191047000	Bivalent/Poised TSS	HUES64 Cell Line	embryonic stem cell
9	chr3:191046400-191047000	Flanking Bivalent TSS/Enh	iPS-15b Cell Line	embryonic stem cell
10	chr3:191046400-191047000	Bivalent/Poised TSS	iPS-20b Cell Line	embryonic stem cell
11	chr3:191046400-191047000	Flanking Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
12	chr3:191046400-191047000	Flanking Active TSS	Liver	Liver
13	chr3:191046400-191047000	Flanking Active TSS	Brain Anterior Caudate	brain
14	chr3:191046400-191047000	Flanking Active TSS	Fetal Brain Male	brain
15	chr3:191046400-191047000	Flanking Active TSS	Fetal Heart	heart
16	chr3:191046400-191047000	Flanking Active TSS	Fetal Lung	lung
17	chr3:191046400-191047000	Flanking Active TSS	GM12878-XiMat	blood
18	chr3:191046400-191047000	Flanking Active TSS	NH-A	brain
19	chr3:191046400-191047000	Flanking Active TSS	NHLF	lung
20	chr3:191046400-191048200	Active TSS	Rectal Smooth Muscle	rectum
21	chr3:191046400-191048400	Active TSS	Ganglion Eminence derived primary cultured neurospheres	brain
22	chr3:191046400-191048600	Active TSS	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
23	chr3:191046400-191048600	Active TSS	Brain Cingulate Gyrus	brain
24	chr3:191046400-191048600	Active TSS	Duodenum Smooth Muscle	Duodenum
25	chr3:191046400-191048800	Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
26	chr3:191046400-191049800	Active TSS	Rectal Mucosa Donor 29	rectum
27	chr3:191046600-191047000	Flanking Bivalent TSS/Enh	H1 Cell Line	embryonic stem cell
28	chr3:191046600-191047000	Flanking Active TSS	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
29	chr3:191046600-191047000	Flanking Active TSS	Breast Myoepithelial Primary Cells	Breast
30	chr3:191046600-191047000	Flanking Active TSS	Primary B cells from cord blood	blood
31	chr3:191046600-191047000	Flanking Active TSS	Primary B cells from peripheral blood	blood
32	chr3:191046600-191047000	Flanking Active TSS	Primary Natural Killer cells fromperipheralblood	blood
33	chr3:191046600-191047000	Flanking Active TSS	Muscle Satellite Cultured Cells	--
34	chr3:191046600-191047000	Flanking Active TSS	Foreskin Keratinocyte Primary Cells skin02	Skin
35	chr3:191046600-191047000	Flanking Active TSS	Foreskin Keratinocyte Primary Cells skin03	Skin
36	chr3:191046600-191047000	Flanking Active TSS	Adipose Nuclei	Adipose
37	chr3:191046600-191047000	Flanking Active TSS	Brain Hippocampus Middle	brain
38	chr3:191046600-191047000	Flanking Active TSS	Duodenum Mucosa	Duodenum
39	chr3:191046600-191047000	Flanking Active TSS	Fetal Adrenal Gland	Adrenal Gland
40	chr3:191046600-191047000	Flanking Active TSS	Fetal Intestine Small	intestine
41	chr3:191046600-191047000	Flanking Active TSS	Fetal Muscle Leg	muscle
42	chr3:191046600-191047000	Flanking Active TSS	Placenta	Placenta
43	chr3:191046600-191047000	Flanking Active TSS	Fetal Stomach	stomach
44	chr3:191046600-191047000	Flanking Active TSS	Fetal Thymus	thymus
45	chr3:191046600-191047000	Flanking Active TSS	Rectal Mucosa Donor 31	rectum
46	chr3:191046600-191047000	Flanking Active TSS	Skeletal Muscle Female	skeletal muscle
47	chr3:191046600-191047000	Flanking Active TSS	Stomach Mucosa	stomach
48	chr3:191046600-191047000	Flanking Active TSS	HMEC	breast
49	chr3:191046600-191047000	Flanking Active TSS	HUVEC	blood vessel
50	chr3:191046600-191047000	Flanking Active TSS	K562	blood

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