Variant report

Variant	rs73394120
Chromosome Location	chr6:25303282-25303283
allele	C/G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:25277631..25279275-chr6:25301822..25304144,2	MCF-7	breast:
2	chr6:25302209..25304566-chr6:25321319..25323421,2	MCF-7	breast:
3	chr6:25279234..25282196-chr6:25302311..25304060,2	K562	blood:

Variant related genes	Relation type
ENSG00000079691	Chromatin interaction

Extended variants
information (count: 10 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:6)

rs_ID	r²[population]
rs59228126	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs60467860	1.00[AMR][1000 genomes]
rs6456663	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9461138	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9461139	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9467467	1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1025694	chr6:25136860-25309450	Weak transcription Enhancers Strong transcription Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	19 gene(s)	inside rSNPs	diseases
2	nsv883485	chr6:25259137-25437986	Weak transcription Enhancers Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
3	nsv883486	chr6:25260434-25422369	Weak transcription Enhancers Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
4	nsv883487	chr6:25280119-25508868	Weak transcription Enhancers Flanking Active TSS Strong transcription Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 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	chr6:25290400-25313400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
2	chr6:25294200-25311200	Weak transcription	Lung	lung
3	chr6:25297400-25304600	Weak transcription	Left Ventricle	heart
4	chr6:25298000-25311800	Weak transcription	Stomach Smooth Muscle	stomach
5	chr6:25298600-25303400	Enhancers	Primary monocytes fromperipheralblood	blood
6	chr6:25300600-25303600	Enhancers	Sigmoid Colon	Sigmoid Colon
7	chr6:25300600-25304000	Enhancers	Primary B cells from peripheral blood	blood
8	chr6:25300800-25303400	Enhancers	Primary hematopoietic stem cells short term culture	blood
9	chr6:25300800-25304000	Enhancers	Cortex derived primary cultured neurospheres	brain
10	chr6:25301000-25304000	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
11	chr6:25301200-25303800	Enhancers	HUES64 Cell Line	embryonic stem cell
12	chr6:25301200-25303800	Enhancers	Primary hematopoietic stem cells	blood
13	chr6:25301200-25305400	Enhancers	Rectal Mucosa Donor 31	rectum
14	chr6:25301400-25303400	Enhancers	HUES6 Cell Line	embryonic stem cell
15	chr6:25301400-25303800	Enhancers	Primary B cells from cord blood	blood
16	chr6:25301400-25313400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
17	chr6:25301600-25303400	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
18	chr6:25301600-25304200	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
19	chr6:25301600-25311600	Weak transcription	H9 Cell Line	embryonic stem cell
20	chr6:25301800-25304200	Enhancers	NHLF	lung
21	chr6:25301800-25305600	Enhancers	Fetal Intestine Large	intestine
22	chr6:25301800-25306000	Enhancers	Fetal Intestine Small	intestine
23	chr6:25302000-25312800	Weak transcription	Brain Hippocampus Middle	brain
24	chr6:25302200-25303400	Enhancers	HUES48 Cell Line	embryonic stem cell
25	chr6:25302200-25303400	Enhancers	iPS-15b Cell Line	embryonic stem cell
26	chr6:25302200-25303400	Enhancers	Brain Germinal Matrix	brain
27	chr6:25302400-25303400	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
28	chr6:25302400-25303400	Enhancers	iPS-18 Cell Line	embryonic stem cell
29	chr6:25302400-25303400	Enhancers	Muscle Satellite Cultured Cells	--
30	chr6:25302400-25303800	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
31	chr6:25302400-25303800	Flanking Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
32	chr6:25302400-25303800	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
33	chr6:25302400-25303800	Enhancers	Brain Angular Gyrus	brain
34	chr6:25302400-25303800	Enhancers	HepG2	liver
35	chr6:25302400-25303800	Enhancers	NH-A	brain
36	chr6:25302400-25304000	Enhancers	Stomach Mucosa	stomach
37	chr6:25302600-25303400	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
38	chr6:25302600-25303400	Enhancers	Osteobl	bone
39	chr6:25302600-25303800	Enhancers	HSMMtube	muscle
40	chr6:25302600-25311200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
41	chr6:25302600-25312400	Weak transcription	Thymus	Thymus
42	chr6:25302800-25303400	Enhancers	ES-I3 Cell Line	embryonic stem cell
43	chr6:25302800-25303400	Flanking Active TSS	Ganglion Eminence derived primary cultured neurospheres	brain
44	chr6:25302800-25303400	Flanking Active TSS	Duodenum Mucosa	Duodenum
45	chr6:25302800-25304600	Enhancers	Duodenum Smooth Muscle	Duodenum
46	chr6:25302800-25307600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
47	chr6:25302800-25312200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
48	chr6:25303000-25303400	Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
49	chr6:25303000-25303400	Enhancers	Primary T helper cells fromperipheralblood	blood
50	chr6:25303000-25303400	Flanking Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links