Variant report

Variant	rs345796
Chromosome Location	chr15:33377105-33377106
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr15:33374615..33377190-chr15:33380884..33382943,2	MCF-7	breast:
2	chr15:33356120..33364271-chr15:33368982..33380679,29	MCF-7	breast:

Variant related genes	Relation type
ENSG00000248905	Chromatin interaction

Extended variants
information (count: 27 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs10519789	0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10519790	1.00[ASN][1000 genomes]
rs11632374	1.00[ASN][1000 genomes]
rs11638642	1.00[ASN][1000 genomes]
rs12148844	1.00[ASN][1000 genomes]
rs12900344	1.00[ASN][1000 genomes]
rs12901863	1.00[CEU][hapmap];1.00[CHB][hapmap];0.84[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12904866	1.00[ASN][1000 genomes]
rs12910785	1.00[CEU][hapmap];1.00[CHB][hapmap];0.84[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12917013	0.80[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12917561	0.88[CEU][hapmap];1.00[CHB][hapmap];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17235589	0.80[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs345778	0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs345797	1.00[CEU][hapmap];1.00[CHB][hapmap];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs345799	1.00[YRI][hapmap];0.86[AFR][1000 genomes]
rs345803	0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34943452	0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62000008	1.00[ASN][1000 genomes]
rs67629086	1.00[ASN][1000 genomes]
rs8039567	0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9783724	0.84[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv903979	chr15:33144202-33550256	Active TSS Enhancers Weak transcription Strong transcription Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
2	nsv1052966	chr15:33149753-33541951	Weak transcription Flanking Active TSS Enhancers Strong transcription Active TSS Bivalent/Poised TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
3	nsv542340	chr15:33149753-33541951	Flanking Active TSS Weak transcription Enhancers Flanking Bivalent TSS/Enh Active TSS Genic enhancers Bivalent Enhancer Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
4	nsv903981	chr15:33207082-33550256	Weak transcription Enhancers Active TSS Flanking Active TSS Genic enhancers Strong transcription Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
5	nsv568918	chr15:33244672-33446971	Enhancers Flanking Active TSS ZNF genes & repeats Weak transcription Genic enhancers Active TSS Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
6	nsv903982	chr15:33282844-33616150	Enhancers Weak transcription Flanking Bivalent TSS/Enh Flanking Active TSS Active TSS Strong transcription Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:32 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:33361200-33378800	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
2	chr15:33370400-33379200	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
3	chr15:33370800-33377600	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
4	chr15:33372600-33384200	Weak transcription	Brain Angular Gyrus	brain
5	chr15:33373400-33378800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
6	chr15:33374400-33377200	Enhancers	H1 Cell Line	embryonic stem cell
7	chr15:33374600-33377400	Enhancers	HUES64 Cell Line	embryonic stem cell
8	chr15:33375200-33377200	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
9	chr15:33375200-33377200	Enhancers	HMEC	breast
10	chr15:33375200-33377200	Enhancers	NHEK	skin
11	chr15:33375400-33380000	Genic enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
12	chr15:33375600-33377200	Genic enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
13	chr15:33375600-33377200	Enhancers	Placenta Amnion	Placenta Amnion
14	chr15:33375600-33377400	Enhancers	Placenta	Placenta
15	chr15:33375600-33377400	Enhancers	HSMMtube	muscle
16	chr15:33375800-33377400	Enhancers	Muscle Satellite Cultured Cells	--
17	chr15:33375800-33382200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
18	chr15:33376200-33377200	Enhancers	ES-I3 Cell Line	embryonic stem cell
19	chr15:33376200-33377200	Enhancers	HUES6 Cell Line	embryonic stem cell
20	chr15:33376200-33379000	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
21	chr15:33376200-33382600	Weak transcription	Esophagus	oesophagus
22	chr15:33376600-33377200	Genic enhancers	NHLF	lung
23	chr15:33376600-33377400	Genic enhancers	HSMM	muscle
24	chr15:33376600-33378800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
25	chr15:33376600-33380600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
26	chr15:33376600-33381000	Weak transcription	Psoas Muscle	Psoas
27	chr15:33376800-33377200	Genic enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
28	chr15:33376800-33377200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
29	chr15:33376800-33378800	Weak transcription	HUES48 Cell Line	embryonic stem cell
30	chr15:33376800-33379200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
31	chr15:33376800-33384600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
32	chr15:33376800-33384600	Weak transcription	NH-A	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links