Variant report

Variant	rs12060682
Chromosome Location	chr1:151118042-151118043
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:16)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:16 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr1:151103786..151106331-chr1:151117499..151120768,3	MCF-7	breast:
2	chr1:151096194..151098701-chr1:151116242..151118774,2	MCF-7	breast:
3	chr1:151102270..151104122-chr1:151117546..151119575,3	K562	blood:
4	chr1:151114895..151122057-chr1:151125026..151130825,9	MCF-7	breast:
5	chr1:151008899..151010447-chr1:151116259..151119248,2	MCF-7	breast:
6	chr1:151117604..151120749-chr1:151128246..151131666,4	MCF-7	breast:
7	chr1:151117625..151120818-chr1:151135402..151140051,4	MCF-7	breast:
8	chr1:151106109..151110392-chr1:151117941..151122227,5	K562	blood:
9	chr1:151104617..151106812-chr1:151117447..151119044,2	MCF-7	breast:
10	chr1:151109028..151112291-chr1:151113939..151118222,5	K562	blood:
11	chr1:151112451..151114594-chr1:151115769..151118069,3	K562	blood:
12	chr1:151117616..151120860-chr1:151252294..151255501,4	K562	blood:
13	chr1:151040013..151045011-chr1:151111761..151118476,6	MCF-7	breast:
14	chr1:151106109..151108676-chr1:151117941..151119953,3	K562	blood:
15	chr1:151112451..151114462-chr1:151116329..151118583,3	K562	blood:
16	chr1:151116657..151121305-chr1:151127749..151129795,4	K562	blood:

No data

Variant related genes	Relation type
ENSG00000163155	Chromatin interaction
ENSG00000143373	Chromatin interaction
ENSG00000143458	Chromatin interaction
ENSG00000197622	Chromatin interaction
ENSG00000261168	Chromatin interaction
ENSG00000232671	Chromatin interaction
ENSG00000163141	Chromatin interaction
ENSG00000163154	Chromatin interaction
ENSG00000143434	Chromatin interaction
ENSG00000163156	Chromatin interaction

Extended variants
information (count: 15 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs12058128	0.96[EUR][1000 genomes]
rs12074309	0.89[EUR][1000 genomes]
rs12088941	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12089658	0.80[AFR][1000 genomes];0.93[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs12090246	0.96[EUR][1000 genomes]
rs12097169	0.89[EUR][1000 genomes]
rs34761930	0.89[EUR][1000 genomes]
rs3892218	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs59603391	0.98[EUR][1000 genomes]
rs61321900	0.89[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	nsv1001897	chr1:150743271-151241600	Flanking Active TSS Enhancers Weak transcription Active TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	156 gene(s)	inside rSNPs	diseases
2	nsv535158	chr1:150743271-151241600	Genic enhancers Weak transcription Strong transcription Enhancers Flanking Active TSS Transcr. at gene 5' and 3' Active TSS Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	156 gene(s)	inside rSNPs	diseases
3	nsv522840	chr1:150933723-151347746	Weak transcription Strong transcription Genic enhancers Flanking Active TSS Enhancers Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	169 gene(s)	inside rSNPs	diseases
4	nsv916272	chr1:150961809-151557253	Weak transcription Flanking Active TSS Strong transcription Transcr. at gene 5' and 3' Active TSS Genic enhancers Enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	219 gene(s)	inside rSNPs	diseases
5	nsv831559	chr1:151109459-151239921	Active TSS Strong transcription Weak transcription Enhancers Transcr. at gene 5' and 3' Genic enhancers Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	87 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:114 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:151104600-151118200	Weak transcription	Primary T cells from cord blood	blood
2	chr1:151115000-151118200	Enhancers	K562	blood
3	chr1:151115000-151118600	Flanking Active TSS	Skeletal Muscle Female	skeletal muscle
4	chr1:151115600-151118800	Flanking Active TSS	Stomach Smooth Muscle	stomach
5	chr1:151116400-151118800	Flanking Active TSS	Ganglion Eminence derived primary cultured neurospheres	brain
6	chr1:151116600-151118800	Flanking Active TSS	H9 Derived Neuron Cultured Cells	ES cell derived
7	chr1:151116800-151118400	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
8	chr1:151116800-151118600	Transcr. at gene 5' and 3'	Skeletal Muscle Male	skeletal muscle
9	chr1:151117000-151118800	Flanking Active TSS	Cortex derived primary cultured neurospheres	brain
10	chr1:151117000-151119600	Active TSS	Fetal Kidney	kidney
11	chr1:151117200-151118200	Flanking Active TSS	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
12	chr1:151117200-151118200	Flanking Active TSS	Right Ventricle	heart
13	chr1:151117200-151118200	Enhancers	Spleen	Spleen
14	chr1:151117200-151118200	Enhancers	Dnd41	blood
15	chr1:151117200-151118400	Flanking Active TSS	Brain Cingulate Gyrus	brain
16	chr1:151117200-151118400	Bivalent/Poised TSS	Rectal Mucosa Donor 29	rectum
17	chr1:151117200-151118600	Flanking Active TSS	Fetal Muscle Leg	muscle
18	chr1:151117200-151118800	Flanking Active TSS	HUVEC	blood vessel
19	chr1:151117200-151119000	Flanking Active TSS	Adipose Nuclei	Adipose
20	chr1:151117200-151119600	Active TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
21	chr1:151117200-151119600	Active TSS	Brain Angular Gyrus	brain
22	chr1:151117400-151118200	Flanking Active TSS	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
23	chr1:151117400-151118200	Bivalent Enhancer	Primary T cells fromperipheralblood	blood
24	chr1:151117400-151118200	Enhancers	Primary T killer memory cells from peripheral blood	blood
25	chr1:151117400-151118200	Active TSS	Brain Inferior Temporal Lobe	brain
26	chr1:151117400-151118200	Flanking Active TSS	Colon Smooth Muscle	Colon
27	chr1:151117400-151118200	Flanking Active TSS	Psoas Muscle	Psoas
28	chr1:151117400-151118400	Flanking Bivalent TSS/Enh	H1 Cell Line	embryonic stem cell
29	chr1:151117400-151118400	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
30	chr1:151117400-151118400	Enhancers	Sigmoid Colon	Sigmoid Colon
31	chr1:151117400-151118600	Flanking Active TSS	Duodenum Mucosa	Duodenum
32	chr1:151117400-151118600	Flanking Bivalent TSS/Enh	Fetal Intestine Small	intestine
33	chr1:151117400-151118800	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
34	chr1:151117400-151119600	Active TSS	Fetal Brain Male	brain
35	chr1:151117400-151119600	Active TSS	Fetal Brain Female	brain
36	chr1:151117400-151119600	Active TSS	HSMMtube	muscle
37	chr1:151117400-151120200	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Female	--
38	chr1:151117600-151118200	Bivalent Enhancer	Placenta	Placenta
39	chr1:151117600-151118200	Flanking Active TSS	Fetal Stomach	stomach
40	chr1:151117600-151118200	Enhancers	Pancreas	Pancrea
41	chr1:151117600-151118400	Flanking Active TSS	Breast Myoepithelial Primary Cells	Breast
42	chr1:151117600-151118400	Flanking Bivalent TSS/Enh	Foreskin Fibroblast Primary Cells skin02	Skin
43	chr1:151117600-151118400	Flanking Bivalent TSS/Enh	Fetal Muscle Trunk	muscle
44	chr1:151117600-151118600	Flanking Active TSS	HSMM	muscle
45	chr1:151117600-151118800	Flanking Active TSS	Fetal Intestine Large	intestine
46	chr1:151117600-151119000	Flanking Active TSS	iPS DF 19.11 Cell Line	embryonic stem cell
47	chr1:151117600-151119000	Flanking Bivalent TSS/Enh	Fetal Adrenal Gland	Adrenal Gland
48	chr1:151117600-151119200	Bivalent/Poised TSS	Brain Germinal Matrix	brain
49	chr1:151117600-151119600	Active TSS	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
50	chr1:151117600-151119600	Active TSS	H9 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links