Variant report

Variant	rs550565895
Chromosome Location	chr3:48315486-48315487
allele	A/G
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:13)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:13 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr3:48312759..48319718-chr3:48469447..48473702,8	MCF-7	breast:
2	chr3:48314912..48317510-chr3:48470548..48472689,2	MCF-7	breast:
3	chr3:48313855..48315594-chr3:48328872..48330506,2	K562	blood:
4	chr3:48314741..48315936-chr3:48477090..48478069,6	MCF-7	breast:
5	chr3:48313306..48315855-chr3:48341365..48343268,2	MCF-7	breast:
6	chr3:48314953..48315704-chr3:48473997..48474750,2	MCF-7	breast:
7	chr3:48314990..48315849-chr3:48442135..48442913,5	K562	blood:
8	chr3:48313829..48315747-chr3:48442766..48445683,2	MCF-7	breast:
9	chr3:48313852..48317014-chr3:48476122..48479164,3	MCF-7	breast:
10	chr3:48314376..48316002-chr3:48477111..48478324,17	MCF-7	breast:
11	chr3:48313740..48316936-chr3:48317939..48320395,4	K562	blood:
12	chr3:48282587..48284198-chr3:48313959..48316882,2	MCF-7	breast:
13	chr3:48314812..48315780-chr3:48476828..48478099,14	K562	blood:

No data

Variant related genes	Relation type
ENSG00000172113	Chromatin interaction
ENSG00000164048	Chromatin interaction
ENSG00000199476	Chromatin interaction
ENSG00000164050	Chromatin interaction

Extended variants
information (count: 5 )
Associated
traits (count: 0)

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	nsv1009243	chr3:47935331-48340448	Enhancers Flanking Active TSS Weak transcription Strong transcription Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS 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
2	nsv536562	chr3:47935331-48340448	Enhancers Active TSS Weak transcription Strong transcription Flanking Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	45 gene(s)	inside rSNPs	diseases
3	nsv1002067	chr3:47996472-48326518	Enhancers Weak transcription Genic enhancers ZNF genes & repeats Flanking Active TSS Strong transcription Active TSS Bivalent Enhancer 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	43 gene(s)	inside rSNPs	diseases
4	nsv834683	chr3:48301504-48493261	Weak transcription Active TSS Flanking Active TSS Strong transcription Enhancers ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	73 gene(s)	inside rSNPs	diseases
5	esv3428777	chr3:48314320-48319936	Weak transcription Flanking Active TSS Enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Active TSS	Chromatin interactive region	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:74 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:48303000-48317400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
2	chr3:48305600-48318000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
3	chr3:48308800-48316800	Weak transcription	Muscle Satellite Cultured Cells	--
4	chr3:48309400-48321000	Weak transcription	Right Atrium	heart
5	chr3:48309600-48317800	Weak transcription	Placenta Amnion	Placenta Amnion
6	chr3:48310200-48316000	Weak transcription	Hela-S3	cervix
7	chr3:48310800-48316400	Weak transcription	Fetal Muscle Trunk	muscle
8	chr3:48310800-48316800	Weak transcription	HSMMtube	muscle
9	chr3:48310800-48330200	Weak transcription	Fetal Lung	lung
10	chr3:48311000-48315800	Weak transcription	Right Ventricle	heart
11	chr3:48311000-48333800	Weak transcription	Brain Anterior Caudate	brain
12	chr3:48311200-48315600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
13	chr3:48311200-48317400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
14	chr3:48311200-48317800	Weak transcription	Rectal Smooth Muscle	rectum
15	chr3:48311200-48318000	Weak transcription	Gastric	stomach
16	chr3:48311200-48330800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
17	chr3:48311200-48334400	Weak transcription	Aorta	Aorta
18	chr3:48311400-48333400	Weak transcription	Skeletal Muscle Female	skeletal muscle
19	chr3:48311400-48334200	Weak transcription	Thymus	Thymus
20	chr3:48311600-48330800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
21	chr3:48311600-48334200	Weak transcription	Primary T helper naive cells from peripheral blood	blood
22	chr3:48311600-48334200	Weak transcription	Liver	Liver
23	chr3:48311800-48316800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
24	chr3:48311800-48329800	Weak transcription	Primary B cells from peripheral blood	blood
25	chr3:48312000-48315600	Weak transcription	Monocytes-CD14+_RO01746	blood
26	chr3:48312000-48316800	Weak transcription	HMEC	breast
27	chr3:48312000-48334400	Weak transcription	Brain Substantia Nigra	brain
28	chr3:48312200-48331000	Weak transcription	Primary hematopoietic stem cells	blood
29	chr3:48312400-48320800	Weak transcription	GM12878-XiMat	blood
30	chr3:48312400-48330200	Weak transcription	Fetal Muscle Leg	muscle
31	chr3:48312400-48334400	Weak transcription	Brain Angular Gyrus	brain
32	chr3:48312600-48316800	Weak transcription	NHEK	skin
33	chr3:48312600-48320400	Weak transcription	Primary T cells from cord blood	blood
34	chr3:48312600-48323600	Weak transcription	Spleen	Spleen
35	chr3:48312600-48333800	Weak transcription	Brain Hippocampus Middle	brain
36	chr3:48312800-48317600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
37	chr3:48312800-48328000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
38	chr3:48312800-48330200	Weak transcription	Duodenum Smooth Muscle	Duodenum
39	chr3:48312800-48334400	Weak transcription	Brain Cingulate Gyrus	brain
40	chr3:48313000-48316200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
41	chr3:48313000-48316600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
42	chr3:48313000-48317600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
43	chr3:48313000-48330200	Weak transcription	Stomach Smooth Muscle	stomach
44	chr3:48313000-48335400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
45	chr3:48313200-48317600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
46	chr3:48313400-48330000	Weak transcription	Fetal Brain Female	brain
47	chr3:48313600-48316200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
48	chr3:48313800-48315600	Enhancers	Pancreas	Pancrea
49	chr3:48313800-48330200	Weak transcription	Brain Germinal Matrix	brain
50	chr3:48313800-48330800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links