Variant report

Variant	rs73873790
Chromosome Location	chr3:156855416-156855417
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr3:156854811..156856693-chr3:156876042..156877591,2	MCF-7	breast:
2	chr3:156391447..156392172-chr3:156855199..156855865,2	K562	blood:
3	chr3:156165808..156166675-chr3:156854917..156855626,2	K562	blood:
4	chr3:156848498..156851635-chr3:156855250..156858331,3	K562	blood:
5	chr3:156394321..156397041-chr3:156854404..156856931,2	MCF-7	breast:
6	chr3:156855375..156857018-chr3:156858174..156860003,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000243926	Chromatin interaction
ENSG00000163659	Chromatin interaction
ENSG00000163660	Chromatin interaction

Extended variants
information (count: 22 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:20)

rs_ID	r²[population]
rs58287058	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs58892422	1.00[AMR][1000 genomes]
rs59252849	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs59359862	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73873603	1.00[AMR][1000 genomes]
rs73873610	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73873611	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73873612	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73873613	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73873617	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73873619	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73873622	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73873624	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73873627	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73873633	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73873646	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73873799	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73873801	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73873802	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73878004	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3349885	chr3:156685409-156878910	Flanking Active TSS Weak transcription Enhancers Transcr. at gene 5' and 3' Strong transcription Genic enhancers Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	141 gene(s)	inside rSNPs	diseases
2	nsv829766	chr3:156811536-157020551	Enhancers Weak transcription Flanking Active TSS Transcr. at gene 5' and 3' Active TSS Strong transcription ZNF genes & repeats Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	144 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:124 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:156842400-156855600	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
2	chr3:156843000-156855600	Enhancers	Osteobl	bone
3	chr3:156845400-156855600	Enhancers	NHDF-Ad	bronchial
4	chr3:156845600-156855600	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
5	chr3:156848200-156855600	Enhancers	HMEC	breast
6	chr3:156848400-156855600	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
7	chr3:156848400-156855600	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
8	chr3:156848400-156866000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
9	chr3:156848400-156866000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
10	chr3:156848600-156855600	Enhancers	Brain Cingulate Gyrus	brain
11	chr3:156848600-156855600	Enhancers	Brain Hippocampus Middle	brain
12	chr3:156848600-156855600	Enhancers	Brain Substantia Nigra	brain
13	chr3:156848600-156856400	Enhancers	Skeletal Muscle Female	skeletal muscle
14	chr3:156848600-156876600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
15	chr3:156849000-156855600	Enhancers	Brain Inferior Temporal Lobe	brain
16	chr3:156849000-156855800	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
17	chr3:156849000-156860000	Weak transcription	Primary hematopoietic stem cells short term culture	blood
18	chr3:156849000-156861000	Weak transcription	Dnd41	blood
19	chr3:156849000-156861800	Weak transcription	H1 Cell Line	embryonic stem cell
20	chr3:156849000-156862400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
21	chr3:156849200-156856000	Weak transcription	HUES6 Cell Line	embryonic stem cell
22	chr3:156849200-156861600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
23	chr3:156849200-156861600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
24	chr3:156849400-156861600	Weak transcription	Primary hematopoietic stem cells	blood
25	chr3:156849800-156864000	Weak transcription	Placenta Amnion	Placenta Amnion
26	chr3:156850000-156855600	Enhancers	Muscle Satellite Cultured Cells	--
27	chr3:156850000-156860200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
28	chr3:156850400-156860800	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
29	chr3:156850400-156861600	Weak transcription	Hela-S3	cervix
30	chr3:156851000-156861000	Weak transcription	HUVEC	blood vessel
31	chr3:156851400-156856000	Enhancers	Stomach Mucosa	stomach
32	chr3:156851800-156855600	Enhancers	NH-A	brain
33	chr3:156852000-156855600	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
34	chr3:156852000-156855600	Enhancers	Rectal Mucosa Donor 31	rectum
35	chr3:156852000-156855600	Enhancers	NHLF	lung
36	chr3:156852200-156856000	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
37	chr3:156852400-156855600	Enhancers	K562	blood
38	chr3:156852600-156855600	Enhancers	Fetal Intestine Small	intestine
39	chr3:156852600-156873400	Strong transcription	Primary monocytes fromperipheralblood	blood
40	chr3:156852800-156855600	Enhancers	Brain Angular Gyrus	brain
41	chr3:156852800-156859000	Weak transcription	Lung	lung
42	chr3:156853200-156855600	Enhancers	Liver	Liver
43	chr3:156853200-156856000	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
44	chr3:156853200-156865400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
45	chr3:156853400-156855600	Enhancers	Fetal Lung	lung
46	chr3:156853400-156872000	Strong transcription	Monocytes-CD14+_RO01746	blood
47	chr3:156853600-156855600	Enhancers	Fetal Stomach	stomach
48	chr3:156853800-156855600	Enhancers	Fetal Brain Female	brain
49	chr3:156853800-156855800	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
50	chr3:156854000-156855600	Enhancers	Pancreatic Islets	Pancreatic Islet

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links