Variant report

Variant	rs28669819
Chromosome Location	chr15:99950077-99950078
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr15:99947884..99951610-chr15:100057572..100060447,3	MCF-7	breast:
2	chr15:99942972..99945321-chr15:99949749..99952573,2	K562	blood:
3	chr15:99949149..99950707-chr15:99953216..99956210,2	MCF-7	breast:
4	chr15:99948631..99950805-chr15:100153730..100155690,2	MCF-7	breast:
5	chr15:99947710..99950479-chr15:99955909..99957738,2	MCF-7	breast:
6	chr15:99949443..99953317-chr15:100104194..100106896,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000068305	Chromatin interaction

Extended variants
information (count: 24 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs28622986	1.00[AFR][1000 genomes]
rs28647344	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28719672	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs56984909	1.00[AMR][1000 genomes]
rs57474825	1.00[AMR][1000 genomes]
rs59449679	1.00[AMR][1000 genomes]
rs60083487	1.00[AMR][1000 genomes]
rs60105964	1.00[AMR][1000 genomes]
rs60683023	1.00[AMR][1000 genomes]
rs60713531	1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:14 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1055008	chr15:99477144-100019861	Enhancers Weak transcription Strong transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	46 gene(s)	inside rSNPs	diseases
2	nsv904543	chr15:99513231-99991506	Weak transcription Flanking Active TSS Enhancers Strong transcription Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	45 gene(s)	inside rSNPs	diseases
3	nsv533926	chr15:99519820-99997114	Enhancers Active TSS Weak transcription Bivalent Enhancer Flanking Active TSS Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	45 gene(s)	inside rSNPs	diseases
4	nsv915926	chr15:99519820-100138705	Active TSS Enhancers Weak transcription Flanking Bivalent TSS/Enh Strong transcription Flanking Active TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	55 gene(s)	inside rSNPs	diseases
5	nsv817289	chr15:99621061-100138705	Weak transcription Flanking Active TSS Enhancers ZNF genes & repeats Strong transcription Bivalent/Poised TSS Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	44 gene(s)	inside rSNPs	diseases
6	nsv431411	chr15:99621061-100143999	Enhancers Flanking Active TSS Weak transcription Active TSS Bivalent/Poised TSS Strong transcription Genic enhancers ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	44 gene(s)	inside rSNPs	diseases
7	nsv904546	chr15:99696046-100166300	Flanking Active TSS Weak transcription Enhancers Bivalent Enhancer Strong transcription Active TSS ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	41 gene(s)	inside rSNPs	diseases
8	nsv1036346	chr15:99752391-100365458	Flanking Bivalent TSS/Enh Flanking Active TSS Strong transcription Enhancers Weak transcription Active TSS Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	47 gene(s)	inside rSNPs	diseases
9	nsv542520	chr15:99752391-100365458	Enhancers Flanking Active TSS Weak transcription Active TSS Strong transcription Genic enhancers ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	47 gene(s)	inside rSNPs	diseases
10	nsv1051560	chr15:99837102-100124483	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Strong transcription Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	19 gene(s)	inside rSNPs	diseases
11	nsv817201	chr15:99839238-100537341	Weak transcription Strong transcription Flanking Active TSS Enhancers Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	36 gene(s)	inside rSNPs	diseases
12	nsv904547	chr15:99940221-99979159	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
13	nsv904548	chr15:99940221-99979418	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
14	nsv904549	chr15:99940221-99991506	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:42 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:99944800-99972400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
2	chr15:99945000-99954600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
3	chr15:99947400-99951200	Enhancers	Breast Myoepithelial Primary Cells	Breast
4	chr15:99948000-99950200	Enhancers	Fetal Muscle Leg	muscle
5	chr15:99948000-99950200	Enhancers	Left Ventricle	heart
6	chr15:99948000-99951000	Enhancers	Fetal Stomach	stomach
7	chr15:99948200-99950200	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
8	chr15:99948200-99950200	Enhancers	Colon Smooth Muscle	Colon
9	chr15:99948200-99951000	Enhancers	Fetal Muscle Trunk	muscle
10	chr15:99948200-99951000	Enhancers	Right Atrium	heart
11	chr15:99948200-99951000	Enhancers	HSMMtube	muscle
12	chr15:99948400-99950200	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
13	chr15:99948600-99950200	Enhancers	Brain Substantia Nigra	brain
14	chr15:99948600-99950800	Weak transcription	Thymus	Thymus
15	chr15:99949000-99950200	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
16	chr15:99949000-99952400	Weak transcription	Hela-S3	cervix
17	chr15:99949200-99950200	Enhancers	Aorta	Aorta
18	chr15:99949200-99950200	Enhancers	Duodenum Smooth Muscle	Duodenum
19	chr15:99949400-99950200	Enhancers	Rectal Smooth Muscle	rectum
20	chr15:99949400-99950200	Enhancers	Skeletal Muscle Female	skeletal muscle
21	chr15:99949400-99950200	Enhancers	NHLF	lung
22	chr15:99949400-99950800	Weak transcription	Primary T cells from cord blood	blood
23	chr15:99949400-99951400	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
24	chr15:99949400-99954400	Weak transcription	HMEC	breast
25	chr15:99949600-99950200	Enhancers	Skeletal Muscle Male	skeletal muscle
26	chr15:99949600-99950200	Enhancers	Stomach Smooth Muscle	stomach
27	chr15:99949600-99950200	Enhancers	NHDF-Ad	bronchial
28	chr15:99949600-99950600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
29	chr15:99949600-99950600	Weak transcription	Fetal Thymus	thymus
30	chr15:99949600-99950800	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
31	chr15:99949600-99950800	Weak transcription	Cortex derived primary cultured neurospheres	brain
32	chr15:99949600-99950800	Weak transcription	Fetal Heart	heart
33	chr15:99949600-99950800	Weak transcription	Spleen	Spleen
34	chr15:99949600-99951200	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
35	chr15:99949600-99954800	Weak transcription	Placenta Amnion	Placenta Amnion
36	chr15:99949600-99956400	Weak transcription	HepG2	liver
37	chr15:99949800-99954600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
38	chr15:99950000-99950200	Enhancers	Lung	lung
39	chr15:99950000-99952600	Weak transcription	Right Ventricle	heart
40	chr15:99950000-99954600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
41	chr15:99950000-99954600	Weak transcription	Esophagus	oesophagus
42	chr15:99950000-99964800	Weak transcription	Adipose Nuclei	Adipose

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