Variant report

Variant	rs59558714
Chromosome Location	chr15:41029692-41029693
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr15:41026566..41029766-chr15:41030549..41035170,5	K562	blood:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-DNAJC17-2	chr15:41029322-41030018	NONHSAT041871

Variant related genes	Relation type
ENSG00000137824	Chromatin interaction

Extended variants
information (count: 59 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:53)

rs_ID	r²[population]
rs10220885	1.00[EUR][1000 genomes]
rs12323939	1.00[EUR][1000 genomes]
rs16971119	1.00[EUR][1000 genomes]
rs45501094	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs45571032	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs45604436	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs55896567	1.00[EUR][1000 genomes]
rs55906732	1.00[EUR][1000 genomes]
rs56229816	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs57242620	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs57288992	1.00[EUR][1000 genomes]
rs58097169	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs58375351	1.00[EUR][1000 genomes]
rs58681580	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs58738238	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs59508492	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs59528823	1.00[EUR][1000 genomes]
rs60109064	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs60111609	1.00[EUR][1000 genomes]
rs60163307	1.00[EUR][1000 genomes]
rs60578270	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs60822673	1.00[EUR][1000 genomes]
rs6492962	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6492963	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7161941	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7164574	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7166733	1.00[EUR][1000 genomes]
rs7167831	1.00[EUR][1000 genomes]
rs7168217	1.00[EUR][1000 genomes]
rs7169273	1.00[EUR][1000 genomes]
rs7171451	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7171898	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7172356	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7178058	1.00[EUR][1000 genomes]
rs7178244	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7182066	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7182516	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs74011880	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs74011881	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs74011884	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs74011886	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs74011887	1.00[EUR][1000 genomes]
rs74011888	1.00[EUR][1000 genomes]
rs74011933	1.00[EUR][1000 genomes]
rs74011936	1.00[EUR][1000 genomes]
rs8035580	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs8038751	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs8039169	1.00[EUR][1000 genomes]
rs8039942	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs8040579	1.00[EUR][1000 genomes]
rs8040925	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9672224	1.00[EUR][1000 genomes]
rs9744142	1.00[EUR][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	nsv1053173	chr15:40933163-41094127	Flanking Active TSS Genic enhancers Strong transcription Flanking Bivalent TSS/Enh Enhancers Weak transcription ZNF genes & repeats Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	57 gene(s)	inside rSNPs	diseases
2	nsv542363	chr15:40933163-41094127	Flanking Active TSS Enhancers Weak transcription Genic enhancers Active TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	57 gene(s)	inside rSNPs	diseases
3	nsv904099	chr15:40949526-41041875	Genic enhancers Enhancers Weak transcription Strong transcription Bivalent/Poised TSS Active TSS Flanking Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	26 gene(s)	inside rSNPs	diseases
4	nsv904101	chr15:40979651-41275014	Weak transcription Enhancers Flanking Active TSS Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	98 gene(s)	inside rSNPs	diseases
5	nsv527234	chr15:40987725-41031686	Transcr. at gene 5' and 3' Strong transcription Active TSS Weak transcription Enhancers Flanking Active TSS Genic enhancers Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	18 gene(s)	inside rSNPs	diseases
6	esv1819092	chr15:41017682-41255750	Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Flanking Active TSS Weak transcription Strong transcription Active TSS Enhancers Bivalent/Poised TSS Bivalent Enhancer Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	83 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:126 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:40988000-41030000	Weak transcription	Pancreas	Pancrea
2	chr15:40988400-41031000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
3	chr15:40998800-41038000	Weak transcription	Stomach Mucosa	stomach
4	chr15:41008200-41046600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
5	chr15:41019200-41035600	Weak transcription	Fetal Heart	heart
6	chr15:41019400-41036000	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
7	chr15:41019400-41046200	Strong transcription	Fetal Stomach	stomach
8	chr15:41019600-41036200	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
9	chr15:41019600-41036200	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
10	chr15:41020000-41029800	Strong transcription	H1 Cell Line	embryonic stem cell
11	chr15:41020000-41036000	Strong transcription	Primary hematopoietic stem cells short term culture	blood
12	chr15:41020000-41043600	Strong transcription	Dnd41	blood
13	chr15:41020200-41030600	Strong transcription	HUES6 Cell Line	embryonic stem cell
14	chr15:41020400-41035600	Strong transcription	K562	blood
15	chr15:41020400-41035800	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
16	chr15:41020400-41036000	Strong transcription	Fetal Thymus	thymus
17	chr15:41020400-41037600	Strong transcription	Monocytes-CD14+_RO01746	blood
18	chr15:41020600-41030800	Strong transcription	HUES48 Cell Line	embryonic stem cell
19	chr15:41020600-41030800	Strong transcription	iPS-20b Cell Line	embryonic stem cell
20	chr15:41020600-41033600	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
21	chr15:41020600-41036000	Strong transcription	Placenta	Placenta
22	chr15:41020600-41036800	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
23	chr15:41020600-41037800	Strong transcription	Primary monocytes fromperipheralblood	blood
24	chr15:41020600-41038200	Strong transcription	Primary neutrophils fromperipheralblood	blood
25	chr15:41020800-41032600	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
26	chr15:41020800-41035600	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
27	chr15:41020800-41035600	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
28	chr15:41020800-41045400	Strong transcription	Fetal Muscle Trunk	muscle
29	chr15:41021400-41030200	Strong transcription	H9 Cell Line	embryonic stem cell
30	chr15:41021400-41033400	Strong transcription	Fetal Brain Female	brain
31	chr15:41021600-41032800	Strong transcription	Osteobl	bone
32	chr15:41021600-41033600	Strong transcription	Cortex derived primary cultured neurospheres	brain
33	chr15:41021600-41034800	Strong transcription	Fetal Intestine Large	intestine
34	chr15:41021600-41035800	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
35	chr15:41021600-41035800	Strong transcription	Foreskin Fibroblast Primary Cells skin01	Skin
36	chr15:41021600-41036000	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
37	chr15:41021800-41034200	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
38	chr15:41021800-41044600	Strong transcription	Brain Germinal Matrix	brain
39	chr15:41023200-41035600	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
40	chr15:41023200-41045200	Strong transcription	Thymus	Thymus
41	chr15:41023400-41034600	Strong transcription	Fetal Intestine Small	intestine
42	chr15:41023600-41036200	Strong transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
43	chr15:41023600-41036800	Strong transcription	Fetal Muscle Leg	muscle
44	chr15:41023800-41031200	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
45	chr15:41023800-41032600	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
46	chr15:41023800-41038400	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
47	chr15:41023800-41045200	Strong transcription	Breast Myoepithelial Primary Cells	Breast
48	chr15:41024200-41031600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
49	chr15:41024400-41030600	Strong transcription	HUES64 Cell Line	embryonic stem cell
50	chr15:41024600-41035400	Strong transcription	Skeletal Muscle Male	skeletal muscle

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links