Variant report

Variant	rs12063028
Chromosome Location	chr1:168573789-168573790
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr1:168572944..168574727-chr1:169074415..169077052,3	MCF-7	breast:
2	chr1:168572929..168574536-chr1:169075342..169076920,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000143153	Chromatin interaction

Extended variants
information (count: 32 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:2)

rs_ID	r²[population]
rs6674956	0.92[AFR][1000 genomes];0.85[AMR][1000 genomes]
rs7526174	0.97[AFR][1000 genomes];0.85[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:30 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1014626	chr1:168441288-168642731	Enhancers Flanking Active TSS Weak transcription Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
2	nsv535196	chr1:168441288-168642731	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
3	nsv1011821	chr1:168441488-168642592	Active TSS Weak transcription Enhancers Flanking Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
4	nsv535197	chr1:168441488-168642592	Weak transcription Enhancers Flanking Active TSS Active TSS Bivalent Enhancer ZNF genes & repeats Genic enhancers Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
5	nsv1008852	chr1:168449940-168643905	Weak transcription Flanking Active TSS Enhancers Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
6	nsv535198	chr1:168449940-168643905	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
7	nsv1007846	chr1:168449940-168687265	Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
8	nsv869415	chr1:168467284-169153863	Flanking Active TSS Weak transcription Enhancers Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Genic enhancers Strong transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	44 gene(s)	inside rSNPs	diseases
9	nsv831836	chr1:168538779-168716956	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
10	esv3502093	chr1:168571578-168575276	Weak transcription Enhancers	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
11	esv3452567	chr1:168571796-168574521	Enhancers Weak transcription	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
12	esv3452568	chr1:168572126-168574379	Weak transcription Enhancers	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
13	esv3452566	chr1:168572158-168574372	Enhancers Weak transcription	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
14	esv3502091	chr1:168572172-168574321	Enhancers Weak transcription	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
15	esv3502092	chr1:168572173-168574298	Weak transcription Enhancers	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
16	esv3502095	chr1:168572206-168574290	Weak transcription Enhancers	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
17	esv3448747	chr1:168572246-168574240	Enhancers Weak transcription	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
18	esv3502094	chr1:168572256-168574241	Weak transcription Enhancers	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
19	esv3452569	chr1:168572260-168574239	Weak transcription Enhancers	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
20	esv3502096	chr1:168572260-168574239	Enhancers Weak transcription	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
21	esv19741	chr1:168572265-168574697	Weak transcription Enhancers	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
22	nsv548136	chr1:168572297-168573903	Weak transcription Enhancers	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
23	nsv548137	chr1:168572297-168574042	Enhancers Weak transcription	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
24	nsv548138	chr1:168572297-168574182	Weak transcription Enhancers	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
25	nsv548139	chr1:168572297-168574284	Enhancers Weak transcription	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
26	nsv548140	chr1:168572453-168574042	Enhancers Weak transcription	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
27	nsv548141	chr1:168572859-168574042	Enhancers Weak transcription	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
28	nsv548142	chr1:168572859-168574182	Weak transcription Enhancers	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
29	nsv548143	chr1:168573041-168574182	Weak transcription Enhancers	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
30	nsv548144	chr1:168573174-168574182	Enhancers Weak transcription	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:168568600-168578400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
2	chr1:168569200-168582600	Weak transcription	Placenta Amnion	Placenta Amnion
3	chr1:168569600-168578600	Weak transcription	Left Ventricle	heart
4	chr1:168569600-168582400	Weak transcription	Fetal Intestine Small	intestine
5	chr1:168569800-168578400	Weak transcription	Fetal Heart	heart
6	chr1:168570800-168578400	Weak transcription	Duodenum Smooth Muscle	Duodenum
7	chr1:168572800-168574200	Weak transcription	Stomach Smooth Muscle	stomach
8	chr1:168573200-168573800	Weak transcription	Rectal Smooth Muscle	rectum
9	chr1:168573200-168574600	Weak transcription	Small Intestine	intestine
10	chr1:168573200-168576000	Weak transcription	Psoas Muscle	Psoas
11	chr1:168573200-168578000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
12	chr1:168573200-168582200	Weak transcription	Brain Hippocampus Middle	brain
13	chr1:168573400-168576000	Weak transcription	Skeletal Muscle Female	skeletal muscle
14	chr1:168573400-168578000	Weak transcription	Colon Smooth Muscle	Colon
15	chr1:168573400-168578800	Weak transcription	Right Ventricle	heart
16	chr1:168573600-168576000	Weak transcription	Skeletal Muscle Male	skeletal muscle

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links