Variant report

Variant	rs17079693
Chromosome Location	chr3:47544808-47544809
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr3:47446673..47448536-chr3:47543472..47546163,2	K562	blood:
2	chr3:47538906..47541877-chr3:47544747..47546993,2	K562	blood:
3	chr3:47535222..47536854-chr3:47544325..47546808,2	K562	blood:
4	chr3:47517236..47519106-chr3:47543060..47545522,2	K562	blood:
5	chr3:47534428..47536854-chr3:47544325..47547166,3	K562	blood:
6	chr3:47543403..47546358-chr3:47552663..47555056,2	MCF-7	breast:
7	chr3:47544325..47548888-chr3:47549831..47552841,6	K562	blood:

Variant related genes	Relation type
ENSG00000076201	Chromatin interaction
ENSG00000114650	Chromatin interaction
ENSG00000163832	Chromatin interaction
ENSG00000271161	Chromatin interaction

Extended variants
information (count: 8 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:7)

rs_ID	r²[population]
rs1038392	0.95[YRI][hapmap]
rs6807733	0.83[AFR][1000 genomes];0.90[AMR][1000 genomes]
rs6810322	0.95[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72913126	0.82[AFR][1000 genomes];0.90[AMR][1000 genomes]
rs72916824	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72916833	0.85[AFR][1000 genomes];0.89[AMR][1000 genomes]
rs72916838	0.82[AFR][1000 genomes];0.90[AMR][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv876756	chr3:47002931-47586514	Strong transcription Enhancers Weak transcription Transcr. at gene 5' and 3' Active TSS Genic enhancers Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	79 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:127 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:47532000-47546400	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
2	chr3:47534200-47547000	Strong transcription	Dnd41	blood
3	chr3:47534400-47546000	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
4	chr3:47534400-47546200	Strong transcription	Monocytes-CD14+_RO01746	blood
5	chr3:47534600-47546000	Strong transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
6	chr3:47534600-47553000	Strong transcription	Fetal Thymus	thymus
7	chr3:47534800-47549400	Weak transcription	Fetal Heart	heart
8	chr3:47534800-47552400	Strong transcription	Fetal Intestine Small	intestine
9	chr3:47534800-47553200	Strong transcription	Fetal Stomach	stomach
10	chr3:47535200-47546200	Strong transcription	iPS-20b Cell Line	embryonic stem cell
11	chr3:47535200-47546200	Strong transcription	Primary T helper naive cells fromperipheralblood	blood
12	chr3:47535200-47546200	Strong transcription	Thymus	Thymus
13	chr3:47535200-47547000	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
14	chr3:47535200-47553000	Strong transcription	Primary hematopoietic stem cells short term culture	blood
15	chr3:47535400-47546400	Strong transcription	Primary T cells fromperipheralblood	blood
16	chr3:47535400-47546400	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
17	chr3:47535400-47546400	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
18	chr3:47535600-47546600	Strong transcription	H1 Cell Line	embryonic stem cell
19	chr3:47535600-47547000	Strong transcription	Foreskin Fibroblast Primary Cells skin02	Skin
20	chr3:47535600-47552800	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
21	chr3:47535800-47546600	Strong transcription	HUES6 Cell Line	embryonic stem cell
22	chr3:47536200-47546400	Strong transcription	Fetal Muscle Trunk	muscle
23	chr3:47536200-47553200	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
24	chr3:47536400-47546000	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
25	chr3:47536400-47546000	Strong transcription	Primary neutrophils fromperipheralblood	blood
26	chr3:47536400-47546200	Strong transcription	Liver	Liver
27	chr3:47536400-47546400	Strong transcription	HUES64 Cell Line	embryonic stem cell
28	chr3:47536400-47546400	Strong transcription	Cortex derived primary cultured neurospheres	brain
29	chr3:47536400-47546800	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
30	chr3:47536400-47547000	Strong transcription	HepG2	liver
31	chr3:47536600-47546000	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
32	chr3:47536600-47546000	Strong transcription	Primary monocytes fromperipheralblood	blood
33	chr3:47536600-47546000	Strong transcription	Colonic Mucosa	Colon
34	chr3:47536600-47546000	Strong transcription	Fetal Intestine Large	intestine
35	chr3:47536600-47546000	Strong transcription	Left Ventricle	heart
36	chr3:47536600-47546000	Strong transcription	Pancreas	Pancrea
37	chr3:47536600-47546000	Strong transcription	GM12878-XiMat	blood
38	chr3:47536600-47546000	Strong transcription	NHLF	lung
39	chr3:47536600-47546000	Strong transcription	Osteobl	bone
40	chr3:47536600-47546200	Strong transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
41	chr3:47536600-47546200	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
42	chr3:47536600-47546200	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
43	chr3:47536600-47546200	Strong transcription	Adipose Nuclei	Adipose
44	chr3:47536600-47546200	Strong transcription	Aorta	Aorta
45	chr3:47536600-47546200	Strong transcription	Brain Anterior Caudate	brain
46	chr3:47536600-47546200	Strong transcription	Duodenum Mucosa	Duodenum
47	chr3:47536600-47546200	Strong transcription	Placenta	Placenta
48	chr3:47536600-47546200	Strong transcription	Gastric	stomach
49	chr3:47536600-47546200	Strong transcription	Skeletal Muscle Male	skeletal muscle
50	chr3:47536600-47546400	Strong transcription	H9 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links