Variant report

Variant	rs73383424
Chromosome Location	chr6:25361120-25361121
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:25273459..25275757-chr6:25360794..25363480,2	MCF-7	breast:
2	chr6:25360833..25363264-chr6:25364832..25366836,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000213972	Chromatin interaction

Extended variants
information (count: 26 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:21)

rs_ID	r²[population]
rs11967836	0.84[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs12333330	0.84[AFR][1000 genomes]
rs17251430	1.00[ASN][1000 genomes]
rs17316893	1.00[ASN][1000 genomes]
rs1883392	0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2149227	1.00[ASN][1000 genomes]
rs56930318	0.84[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs57899991	0.91[AFR][1000 genomes];0.88[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs59821513	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs60982159	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6456671	0.94[EUR][1000 genomes]
rs6905765	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73399971	0.84[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs7748771	0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7749494	0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7750545	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7763072	0.87[EUR][1000 genomes]
rs9461142	0.84[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs9467477	0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9986335	0.87[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs9986608	0.84[AMR][1000 genomes];0.96[EUR][1000 genomes]

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	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
2	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
3	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
4	nsv830612	chr6:25342408-25509758	Enhancers Strong transcription Weak transcription Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
5	nsv601168	chr6:25346334-25393306	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS ZNF genes & repeats Genic enhancers Strong transcription Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:62 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:25352200-25363000	Weak transcription	Primary monocytes fromperipheralblood	blood
2	chr6:25358800-25361400	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
3	chr6:25358800-25362600	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
4	chr6:25359200-25361200	Enhancers	iPS-15b Cell Line	embryonic stem cell
5	chr6:25359200-25361200	Enhancers	Duodenum Mucosa	Duodenum
6	chr6:25359200-25361200	Enhancers	HSMM	muscle
7	chr6:25359200-25361400	Flanking Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
8	chr6:25359200-25362800	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
9	chr6:25359200-25363600	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
10	chr6:25359400-25361200	Enhancers	ES-I3 Cell Line	embryonic stem cell
11	chr6:25359400-25361200	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
12	chr6:25359400-25361200	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
13	chr6:25359600-25361200	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
14	chr6:25359600-25361400	Enhancers	Brain Anterior Caudate	brain
15	chr6:25359600-25366000	Weak transcription	Primary T helper cells PMA-I stimulated	--
16	chr6:25359800-25361200	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
17	chr6:25359800-25361400	Enhancers	Thymus	Thymus
18	chr6:25359800-25362400	Weak transcription	Sigmoid Colon	Sigmoid Colon
19	chr6:25359800-25367200	Weak transcription	Rectal Mucosa Donor 29	rectum
20	chr6:25360000-25361400	Enhancers	Muscle Satellite Cultured Cells	--
21	chr6:25360000-25361400	Enhancers	NHEK	skin
22	chr6:25360000-25362000	Enhancers	NHLF	lung
23	chr6:25360000-25367200	Weak transcription	H9 Cell Line	embryonic stem cell
24	chr6:25360000-25367400	Weak transcription	Lung	lung
25	chr6:25360000-25367400	Weak transcription	Right Atrium	heart
26	chr6:25360200-25361200	Flanking Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
27	chr6:25360200-25361400	Enhancers	Fetal Lung	lung
28	chr6:25360200-25361800	Enhancers	HMEC	breast
29	chr6:25360200-25363000	Weak transcription	HUES6 Cell Line	embryonic stem cell
30	chr6:25360400-25361200	Enhancers	Adipose Nuclei	Adipose
31	chr6:25360400-25361400	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
32	chr6:25360400-25361400	Enhancers	Hela-S3	cervix
33	chr6:25360400-25361400	Enhancers	HSMMtube	muscle
34	chr6:25360400-25361400	Enhancers	NHDF-Ad	bronchial
35	chr6:25360400-25361400	Enhancers	Osteobl	bone
36	chr6:25360400-25363800	Enhancers	Breast Myoepithelial Primary Cells	Breast
37	chr6:25360400-25366000	Enhancers	Cortex derived primary cultured neurospheres	brain
38	chr6:25360400-25366400	Weak transcription	Gastric	stomach
39	chr6:25360400-25367600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
40	chr6:25360400-25367600	Weak transcription	Pancreas	Pancrea
41	chr6:25360400-25367800	Weak transcription	Brain Germinal Matrix	brain
42	chr6:25360400-25369200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
43	chr6:25360600-25361400	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
44	chr6:25360600-25365600	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
45	chr6:25360800-25367200	Weak transcription	HUES48 Cell Line	embryonic stem cell
46	chr6:25360800-25367600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
47	chr6:25360800-25369800	Weak transcription	Duodenum Smooth Muscle	Duodenum
48	chr6:25361000-25361200	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
49	chr6:25361000-25362000	Weak transcription	H1 Cell Line	embryonic stem cell
50	chr6:25361000-25362800	Weak transcription	Aorta	Aorta

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links