Variant report

Variant	rs59176712
Chromosome Location	chr17:59938104-59938105
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:9)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:9 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr17:59936062..59938856-chr20:52546755..52548819,2	MCF-7	breast:
2	chr17:59936074..59944748-chr20:55835834..55847370,36	MCF-7	breast:
3	chr17:59937475..59939110-chr20:55817376..55819720,2	MCF-7	breast:
4	chr17:59936983..59940866-chr17:60141087..60143647,5	MCF-7	breast:
5	chr17:59929026..59944759-chr20:55831267..55853908,71	MCF-7	breast:
6	chr11:62605730..62607893-chr17:59936927..59940452,3	MCF-7	breast:
7	chr17:59476206..59478986-chr17:59937418..59941494,6	MCF-7	breast:
8	chr17:59936018..59938518-chr17:59959073..59961251,2	K562	blood:
9	chr17:59486255..59492170-chr17:59932286..59941695,13	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000101144	Chromatin interaction
ENSG00000187013	Chromatin interaction
ENSG00000267131	Chromatin interaction
ENSG00000108510	Chromatin interaction
ENSG00000133316	Chromatin interaction
ENSG00000267280	Chromatin interaction
ENSG00000226308	Chromatin interaction
ENSG00000121068	Chromatin interaction

Extended variants
information (count: 12 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs2138005	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7213469	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7213672	0.92[AFR][1000 genomes]
rs73991950	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73991951	1.00[AMR][1000 genomes]
rs9900338	1.00[AMR][1000 genomes]
rs9900745	1.00[AMR][1000 genomes]
rs9908729	1.00[AMR][1000 genomes]
rs9913705	1.00[AMR][1000 genomes]
rs9914236	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3378293	chr17:59744117-60124899	ZNF genes & repeats Strong transcription Weak transcription Flanking Active TSS Active TSS Enhancers Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	175 gene(s)	inside rSNPs	diseases
2	nsv916786	chr17:59890834-60103687	Weak transcription Enhancers Strong transcription Active TSS Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	116 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:77 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr17:59898800-59939600	Weak transcription	Primary monocytes fromperipheralblood	blood
2	chr17:59898800-59939800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
3	chr17:59905800-59939000	Weak transcription	Primary T cells from cord blood	blood
4	chr17:59906200-59940200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
5	chr17:59911800-59939000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
6	chr17:59912000-59938400	Weak transcription	HUVEC	blood vessel
7	chr17:59912200-59939200	Weak transcription	HSMM	muscle
8	chr17:59912200-59939800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
9	chr17:59912400-59938600	Weak transcription	NHDF-Ad	bronchial
10	chr17:59912400-59938600	Weak transcription	NHEK	skin
11	chr17:59912400-59939400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
12	chr17:59912400-59940000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
13	chr17:59912400-59940400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
14	chr17:59914600-59938600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
15	chr17:59916600-59938600	Strong transcription	HUES64 Cell Line	embryonic stem cell
16	chr17:59917800-59939200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
17	chr17:59918000-59939000	Weak transcription	Duodenum Mucosa	Duodenum
18	chr17:59920400-59940200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
19	chr17:59921200-59939800	Weak transcription	Thymus	Thymus
20	chr17:59921600-59940000	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
21	chr17:59922200-59938400	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
22	chr17:59922200-59939000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
23	chr17:59923200-59938400	Weak transcription	Osteobl	bone
24	chr17:59923200-59939800	Weak transcription	Fetal Muscle Leg	muscle
25	chr17:59923600-59940200	Weak transcription	Primary T cells fromperipheralblood	blood
26	chr17:59924800-59939200	Weak transcription	Primary neutrophils fromperipheralblood	blood
27	chr17:59926200-59940200	Weak transcription	Fetal Muscle Trunk	muscle
28	chr17:59926400-59939200	Weak transcription	Fetal Brain Female	brain
29	chr17:59927200-59938600	Weak transcription	Brain Germinal Matrix	brain
30	chr17:59927400-59939200	Weak transcription	Fetal Kidney	kidney
31	chr17:59927800-59938800	Weak transcription	Fetal Stomach	stomach
32	chr17:59929000-59938600	Strong transcription	iPS-20b Cell Line	embryonic stem cell
33	chr17:59931600-59939800	Weak transcription	Primary B cells from cord blood	blood
34	chr17:59932200-59940200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
35	chr17:59932800-59938600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
36	chr17:59932800-59938600	Weak transcription	Fetal Lung	lung
37	chr17:59933400-59940400	Weak transcription	Pancreas	Pancrea
38	chr17:59933800-59938600	Weak transcription	A549	lung
39	chr17:59933800-59938800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
40	chr17:59933800-59939400	Weak transcription	Monocytes-CD14+_RO01746	blood
41	chr17:59934000-59939200	Weak transcription	Primary hematopoietic stem cells	blood
42	chr17:59934400-59938200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
43	chr17:59934600-59938600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
44	chr17:59934800-59938600	Weak transcription	NH-A	brain
45	chr17:59935000-59938600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
46	chr17:59935000-59938800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
47	chr17:59935000-59939000	Weak transcription	H1 Cell Line	embryonic stem cell
48	chr17:59935000-59939000	Weak transcription	Fetal Intestine Large	intestine
49	chr17:59935000-59940200	Weak transcription	Ovary	ovary
50	chr17:59936600-59938200	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links