Variant report

Variant	rs16890347
Chromosome Location	chr6:79576208-79576209
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	POLR2A	chr6:79576152-79576260	MCF10A-Er-Src	breast:	n/a	n/a
2	IRF1	chr6:79576016-79576256	K562	blood:	n/a	n/a
3	EP300	chr6:79576139-79576390	GM12878	blood:	n/a	n/a

No.	Distal block	Cell Line	Cell type
1	chr6:79575800..79578597-chr6:79786334..79789260,2	MCF-7	breast:
2	chr6:79575390..79577053-chr6:79941953..79944016,2	K562	blood:
3	chr6:79576198..79578688-chr6:79580398..79583072,2	K562	blood:

Variant related genes	Relation type
IRAK1BP1	TF binding region
ENSG00000146247	Chromatin interaction
ENSG00000146243	Chromatin interaction
ENSG00000270362	Chromatin interaction

Extended variants
information (count: 8 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:5)

rs_ID	r²[population]
rs16890324	0.83[AFR][1000 genomes]
rs16890325	0.83[AFR][1000 genomes]
rs16890326	0.88[AFR][1000 genomes]
rs16890328	0.88[AFR][1000 genomes]
rs16890331	0.88[AFR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1015352	chr6:79521820-79757024	Weak transcription Strong transcription Flanking Active TSS Enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Active TSS Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
2	esv1839807	chr6:79532610-79606615	ZNF genes & repeats Flanking Active TSS Enhancers Weak transcription Active TSS Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	5 gene(s)	inside rSNPs	diseases
3	nsv970379	chr6:79571879-79578296	Enhancers Flanking Active TSS Active TSS Weak transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:53 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:79555800-79576400	Weak transcription	Left Ventricle	heart
2	chr6:79566200-79576400	Weak transcription	Gastric	stomach
3	chr6:79568800-79576400	Weak transcription	Pancreas	Pancrea
4	chr6:79569800-79576800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
5	chr6:79571600-79576400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
6	chr6:79573000-79576400	Weak transcription	Primary B cells from cord blood	blood
7	chr6:79573600-79576400	Weak transcription	Small Intestine	intestine
8	chr6:79574600-79578400	Active TSS	K562	blood
9	chr6:79576000-79576600	Flanking Active TSS	Dnd41	blood
10	chr6:79576000-79576800	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
11	chr6:79576000-79576800	Enhancers	Primary T helper naive cells from peripheral blood	blood
12	chr6:79576000-79578600	Active TSS	ES-I3 Cell Line	embryonic stem cell
13	chr6:79576200-79576400	Flanking Active TSS	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
14	chr6:79576200-79576400	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
15	chr6:79576200-79576400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
16	chr6:79576200-79576400	Enhancers	Brain Angular Gyrus	brain
17	chr6:79576200-79576400	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
18	chr6:79576200-79576400	Enhancers	Fetal Lung	lung
19	chr6:79576200-79576400	Enhancers	Right Ventricle	heart
20	chr6:79576200-79576400	Enhancers	Skeletal Muscle Male	skeletal muscle
21	chr6:79576200-79576400	Enhancers	Thymus	Thymus
22	chr6:79576200-79576400	Enhancers	HepG2	liver
23	chr6:79576200-79576600	Flanking Active TSS	H9 Derived Neuron Cultured Cells	ES cell derived
24	chr6:79576200-79576600	Enhancers	Primary T helper cells PMA-I stimulated	--
25	chr6:79576200-79576600	Enhancers	Primary T regulatory cells fromperipheralblood	blood
26	chr6:79576200-79576600	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
27	chr6:79576200-79576600	Flanking Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
28	chr6:79576200-79576600	Flanking Active TSS	Foreskin Keratinocyte Primary Cells skin02	Skin
29	chr6:79576200-79576600	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
30	chr6:79576200-79576600	Flanking Active TSS	Brain Anterior Caudate	brain
31	chr6:79576200-79576600	Enhancers	Colonic Mucosa	Colon
32	chr6:79576200-79576600	Enhancers	Fetal Heart	heart
33	chr6:79576200-79576600	Enhancers	Fetal Muscle Leg	muscle
34	chr6:79576200-79576600	Enhancers	Fetal Stomach	stomach
35	chr6:79576200-79576600	Flanking Active TSS	GM12878-XiMat	blood
36	chr6:79576200-79576800	Enhancers	Primary T helper naive cells fromperipheralblood	blood
37	chr6:79576200-79576800	Enhancers	Primary T killer naive cells fromperipheralblood	blood
38	chr6:79576200-79576800	Enhancers	Primary T killer memory cells from peripheral blood	blood
39	chr6:79576200-79576800	Enhancers	Cortex derived primary cultured neurospheres	brain
40	chr6:79576200-79576800	Enhancers	Brain Cingulate Gyrus	brain
41	chr6:79576200-79577400	Active TSS	Adipose Nuclei	Adipose
42	chr6:79576200-79577800	Active TSS	Primary hematopoietic stem cells short term culture	blood
43	chr6:79576200-79578000	Active TSS	Brain Inferior Temporal Lobe	brain
44	chr6:79576200-79578000	Active TSS	Skeletal Muscle Female	skeletal muscle
45	chr6:79576200-79578200	Active TSS	Brain Hippocampus Middle	brain
46	chr6:79576200-79578200	Active TSS	Rectal Mucosa Donor 31	rectum
47	chr6:79576200-79578200	Active TSS	A549	lung
48	chr6:79576200-79578400	Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
49	chr6:79576200-79578400	Active TSS	Hela-S3	cervix
50	chr6:79576200-79578600	Active TSS	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links