Variant report

Variant	rs6786013
Chromosome Location	chr3:43586882-43586883
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr3:43585766..43588147-chr3:43731493..43734208,2	MCF-7	breast:
2	chr3:43585085..43587438-chr3:43589479..43591274,2	K562	blood:
3	chr3:43585797..43588014-chr3:43597479..43599689,2	K562	blood:

Variant related genes	Relation type
ENSG00000160746	Chromatin interaction
ENSG00000011198	Chromatin interaction

Extended variants
information (count: 16 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:10)

rs_ID	r²[population]
rs1038202	0.81[AMR][1000 genomes]
rs17408925	0.83[AMR][1000 genomes]
rs2054553	0.82[AFR][1000 genomes];0.84[AMR][1000 genomes]
rs2054554	0.80[AMR][1000 genomes]
rs3772165	0.80[AMR][1000 genomes]
rs3902207	0.84[AMR][1000 genomes]
rs4682690	0.84[AMR][1000 genomes]
rs7616708	0.84[AMR][1000 genomes]
rs9311341	0.80[AMR][1000 genomes]
rs9878330	0.84[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv428738	chr3:43491435-43651168	Strong transcription Bivalent Enhancer Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Genic enhancers Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
2	nsv822067	chr3:43584576-43592360	Weak transcription Enhancers Strong transcription Genic enhancers Flanking Active TSS ZNF genes & repeats	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
3	nsv822068	chr3:43584795-43592360	Weak transcription Enhancers ZNF genes & repeats Strong transcription Flanking Active TSS Genic enhancers	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
4	nsv822069	chr3:43585009-43592360	Weak transcription Strong transcription Enhancers Flanking Active TSS ZNF genes & repeats Genic enhancers	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
5	nsv822070	chr3:43585009-43596684	Weak transcription Strong transcription Enhancers Genic enhancers ZNF genes & repeats Flanking Active TSS	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
6	nsv820135	chr3:43585311-43594452	Weak transcription Strong transcription Enhancers ZNF genes & repeats Genic enhancers Flanking Active TSS	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:83 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:43540200-43602200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
2	chr3:43542800-43588800	Weak transcription	Left Ventricle	heart
3	chr3:43544000-43617600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
4	chr3:43547600-43595800	Weak transcription	Fetal Stomach	stomach
5	chr3:43553000-43601600	Weak transcription	Colon Smooth Muscle	Colon
6	chr3:43553600-43595800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
7	chr3:43554800-43589400	Weak transcription	HSMMtube	muscle
8	chr3:43556200-43624800	Weak transcription	Rectal Smooth Muscle	rectum
9	chr3:43558600-43625600	Weak transcription	Lung	lung
10	chr3:43560800-43618000	Weak transcription	Brain Hippocampus Middle	brain
11	chr3:43561200-43601200	Weak transcription	Skeletal Muscle Female	skeletal muscle
12	chr3:43561400-43600400	Weak transcription	Stomach Smooth Muscle	stomach
13	chr3:43561600-43588800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
14	chr3:43561600-43589000	Weak transcription	Rectal Mucosa Donor 29	rectum
15	chr3:43561600-43590600	Weak transcription	Ovary	ovary
16	chr3:43561600-43601000	Weak transcription	Pancreas	Pancrea
17	chr3:43561800-43590600	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
18	chr3:43561800-43602000	Weak transcription	Duodenum Smooth Muscle	Duodenum
19	chr3:43562000-43589200	Weak transcription	Rectal Mucosa Donor 31	rectum
20	chr3:43569600-43587800	Weak transcription	Primary T cells from cord blood	blood
21	chr3:43571000-43588000	Weak transcription	Primary hematopoietic stem cells	blood
22	chr3:43571000-43594600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
23	chr3:43571000-43613600	Weak transcription	Gastric	stomach
24	chr3:43573800-43596400	Weak transcription	HMEC	breast
25	chr3:43573800-43601400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
26	chr3:43573800-43617800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
27	chr3:43574800-43662400	Weak transcription	Right Ventricle	heart
28	chr3:43576200-43601000	Weak transcription	Esophagus	oesophagus
29	chr3:43576200-43623800	Weak transcription	Psoas Muscle	Psoas
30	chr3:43576400-43589000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
31	chr3:43576400-43613600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
32	chr3:43576400-43621200	Weak transcription	NHEK	skin
33	chr3:43577000-43590800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
34	chr3:43577200-43595400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
35	chr3:43577400-43590600	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
36	chr3:43577600-43625400	Weak transcription	HUVEC	blood vessel
37	chr3:43577800-43595000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
38	chr3:43578200-43599800	Weak transcription	Fetal Brain Female	brain
39	chr3:43578400-43593400	Weak transcription	Primary T helper cells fromperipheralblood	blood
40	chr3:43579000-43589200	Weak transcription	H9 Cell Line	embryonic stem cell
41	chr3:43579000-43590400	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
42	chr3:43579000-43594600	Weak transcription	Primary monocytes fromperipheralblood	blood
43	chr3:43579200-43590800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
44	chr3:43579200-43600200	Weak transcription	Liver	Liver
45	chr3:43580600-43647600	Weak transcription	Brain Angular Gyrus	brain
46	chr3:43580800-43613800	Weak transcription	Aorta	Aorta
47	chr3:43581000-43589000	Weak transcription	HSMM	muscle
48	chr3:43581200-43589000	Weak transcription	Monocytes-CD14+_RO01746	blood
49	chr3:43581800-43590600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
50	chr3:43581800-43594800	Weak transcription	Fetal Muscle Leg	muscle

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links