Variant report

Variant	rs17235857
Chromosome Location	chr15:45011381-45011382
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr15:45010137..45014339-chr15:45017544..45021915,6	MCF-7	breast:
2	chr15:45007100..45009716-chr15:45011115..45014143,3	MCF-7	breast:
3	chr15:44955888..44958795-chr15:45009169..45012963,6	K562	blood:
4	chr15:44952188..44965604-chr15:45001074..45012963,51	K562	blood:

Variant related genes	Relation type
ENSG00000185880	Chromatin interaction
ENSG00000229474	Chromatin interaction
ENSG00000166710	Chromatin interaction
ENSG00000104133	Chromatin interaction

Extended variants
information (count: 18 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:14)

rs_ID	r²[population]
rs11853269	0.90[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs11856066	0.90[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs16966424	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16974273	0.88[EUR][1000 genomes]
rs17235843	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17588305	0.83[ASN][1000 genomes]
rs17589301	0.80[ASN][1000 genomes]
rs34569539	0.83[EUR][1000 genomes]
rs3759882	0.90[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs3759883	0.90[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs3759884	0.90[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs4780	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7167254	0.90[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs7175030	0.83[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3386433	chr15:44654644-45037538	Enhancers ZNF genes & repeats Weak transcription Flanking Active TSS Genic enhancers Strong transcription Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	135 gene(s)	inside rSNPs	diseases
2	esv2758380	chr15:44968868-45422842	Enhancers Active TSS Strong transcription Flanking Bivalent TSS/Enh Genic enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	95 gene(s)	inside rSNPs	diseases
3	esv2760029	chr15:44968868-45422842	Enhancers Weak transcription Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Genic enhancers Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	95 gene(s)	inside rSNPs	diseases
4	nsv832990	chr15:44990765-45162714	Enhancers Strong transcription Flanking Active TSS Weak transcription Genic enhancers Transcr. at gene 5' and 3' Active TSS Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	71 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:121 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:45003200-45011600	Transcr. at gene 5' and 3'	Primary T helper 17 cells PMA-I stimulated	--
2	chr15:45004200-45012400	Transcr. at gene 5' and 3'	Primary T helper cells PMA-I stimulated	--
3	chr15:45004600-45020600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
4	chr15:45005000-45018400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
5	chr15:45005000-45018600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
6	chr15:45005200-45011400	Transcr. at gene 5' and 3'	GM12878-XiMat	blood
7	chr15:45006000-45012200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
8	chr15:45006800-45012000	Strong transcription	Osteobl	bone
9	chr15:45007000-45011400	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
10	chr15:45007000-45011400	Strong transcription	HUVEC	blood vessel
11	chr15:45007000-45011600	Strong transcription	NH-A	brain
12	chr15:45007200-45011400	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
13	chr15:45007200-45011600	Genic enhancers	Primary monocytes fromperipheralblood	blood
14	chr15:45007200-45011600	Strong transcription	HSMMtube	muscle
15	chr15:45007200-45012000	Strong transcription	Muscle Satellite Cultured Cells	--
16	chr15:45007400-45011400	Strong transcription	Placenta	Placenta
17	chr15:45007400-45011600	Strong transcription	Foreskin Fibroblast Primary Cells skin01	Skin
18	chr15:45007400-45012000	Strong transcription	Breast Myoepithelial Primary Cells	Breast
19	chr15:45007400-45012600	Strong transcription	Fetal Muscle Leg	muscle
20	chr15:45007600-45011800	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
21	chr15:45007600-45011800	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
22	chr15:45007800-45011400	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
23	chr15:45007800-45011400	Strong transcription	Fetal Lung	lung
24	chr15:45007800-45013200	Genic enhancers	Primary B cells from peripheral blood	blood
25	chr15:45008200-45011600	Strong transcription	Rectal Mucosa Donor 29	rectum
26	chr15:45008200-45011600	Strong transcription	NHLF	lung
27	chr15:45008200-45012000	Strong transcription	NHDF-Ad	bronchial
28	chr15:45008200-45013400	Genic enhancers	Primary B cells from cord blood	blood
29	chr15:45008400-45011400	Strong transcription	Colon Smooth Muscle	Colon
30	chr15:45008400-45011600	Genic enhancers	Primary T helper cells fromperipheralblood	blood
31	chr15:45008400-45012000	Genic enhancers	Primary mononuclear cells fromperipheralblood	Blood
32	chr15:45008600-45018400	Weak transcription	A549	lung
33	chr15:45008800-45011400	Strong transcription	Duodenum Smooth Muscle	Duodenum
34	chr15:45008800-45011400	Strong transcription	Skeletal Muscle Male	skeletal muscle
35	chr15:45008800-45012000	Strong transcription	Left Ventricle	heart
36	chr15:45008800-45018400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
37	chr15:45009000-45011600	Strong transcription	Liver	Liver
38	chr15:45009000-45011600	Strong transcription	Rectal Mucosa Donor 31	rectum
39	chr15:45009000-45012000	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
40	chr15:45009000-45013400	Genic enhancers	Primary Natural Killer cells fromperipheralblood	blood
41	chr15:45009000-45018200	Weak transcription	Stomach Mucosa	stomach
42	chr15:45009000-45018400	Weak transcription	H1 Cell Line	embryonic stem cell
43	chr15:45009000-45018400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
44	chr15:45009000-45018400	Weak transcription	H9 Cell Line	embryonic stem cell
45	chr15:45009200-45011400	Strong transcription	Primary hematopoietic stem cells	blood
46	chr15:45009200-45011400	Genic enhancers	Primary T helper memory cells from peripheral blood 1	blood
47	chr15:45009200-45011400	Strong transcription	Sigmoid Colon	Sigmoid Colon
48	chr15:45009200-45011400	Genic enhancers	Monocytes-CD14+_RO01746	blood
49	chr15:45009200-45011600	Genic enhancers	Primary T cells effector/memory enriched fromperipheralblood	blood
50	chr15:45009200-45011600	Weak transcription	HepG2	liver

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links