Variant report

Variant	rs17079575
Chromosome Location	chr3:47360893-47360894
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr3:47357694..47362464-chr3:47362974..47365576,6	K562	blood:
2	chr3:47356963..47358845-chr3:47360434..47362200,2	K562	blood:
3	chr3:47205889..47207701-chr3:47360289..47361943,2	K562	blood:
4	chr3:47344315..47346050-chr3:47359067..47360914,2	K562	blood:

Variant related genes	Relation type
ENSG00000227398	Chromatin interaction

Extended variants
information (count: 13 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:12)

rs_ID	r²[population]
rs1038392	0.82[YRI][hapmap]
rs59695705	0.82[AFR][1000 genomes];0.80[AMR][1000 genomes]
rs60155495	0.80[AMR][1000 genomes]
rs6768809	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6769788	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6798440	0.83[ASW][hapmap];0.92[LWK][hapmap];0.81[MKK][hapmap];0.82[YRI][hapmap]
rs6799812	1.00[YRI][hapmap];0.85[AFR][1000 genomes];0.80[AMR][1000 genomes]
rs6810322	0.92[ASW][hapmap];1.00[MEX][hapmap];0.82[YRI][hapmap]
rs72909157	0.94[AFR][1000 genomes];0.80[AMR][1000 genomes]
rs72911240	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72911242	0.92[AFR][1000 genomes];0.91[AMR][1000 genomes]
rs7646252	0.86[AFR][1000 genomes];0.80[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:125 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:47325400-47361000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
2	chr3:47325600-47367600	Weak transcription	A549	lung
3	chr3:47326200-47362200	Weak transcription	Gastric	stomach
4	chr3:47326200-47363200	Weak transcription	Rectal Mucosa Donor 31	rectum
5	chr3:47326400-47364400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
6	chr3:47328400-47364400	Weak transcription	Pancreas	Pancrea
7	chr3:47330800-47361800	Weak transcription	HMEC	breast
8	chr3:47332200-47361800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
9	chr3:47332600-47361000	Weak transcription	Esophagus	oesophagus
10	chr3:47332800-47361000	Weak transcription	Aorta	Aorta
11	chr3:47333200-47364800	Weak transcription	NH-A	brain
12	chr3:47333800-47371400	Weak transcription	Psoas Muscle	Psoas
13	chr3:47337000-47361000	Weak transcription	Brain Cingulate Gyrus	brain
14	chr3:47338400-47361200	Weak transcription	H9 Cell Line	embryonic stem cell
15	chr3:47338600-47361200	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
16	chr3:47338600-47369800	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
17	chr3:47338600-47371200	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
18	chr3:47339000-47361800	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
19	chr3:47343200-47362000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
20	chr3:47344400-47362200	Weak transcription	Brain Germinal Matrix	brain
21	chr3:47344800-47361200	Weak transcription	HUES48 Cell Line	embryonic stem cell
22	chr3:47345000-47361000	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
23	chr3:47345000-47361000	Weak transcription	Rectal Mucosa Donor 29	rectum
24	chr3:47345000-47361000	Weak transcription	Dnd41	blood
25	chr3:47345000-47370000	Weak transcription	Primary T helper naive cells from peripheral blood	blood
26	chr3:47345200-47361000	Weak transcription	Fetal Muscle Trunk	muscle
27	chr3:47345200-47361200	Weak transcription	Brain Hippocampus Middle	brain
28	chr3:47345200-47361800	Weak transcription	Fetal Brain Female	brain
29	chr3:47345200-47363200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
30	chr3:47345200-47365200	Weak transcription	Primary T killer memory cells from peripheral blood	blood
31	chr3:47345400-47361000	Weak transcription	Fetal Stomach	stomach
32	chr3:47345800-47361000	Weak transcription	Primary T helper cells fromperipheralblood	blood
33	chr3:47346400-47361000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
34	chr3:47346400-47361800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
35	chr3:47346800-47361000	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
36	chr3:47349400-47361000	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
37	chr3:47349400-47361200	Weak transcription	HSMM	muscle
38	chr3:47349800-47361000	Weak transcription	HUES64 Cell Line	embryonic stem cell
39	chr3:47349800-47361200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
40	chr3:47350400-47362000	Weak transcription	Right Ventricle	heart
41	chr3:47351800-47361000	Weak transcription	H1 Cell Line	embryonic stem cell
42	chr3:47352400-47361200	Weak transcription	Lung	lung
43	chr3:47352400-47361200	Weak transcription	NHEK	skin
44	chr3:47352400-47361400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
45	chr3:47356200-47361200	Weak transcription	HepG2	liver
46	chr3:47356400-47371200	Weak transcription	Pancreatic Islets	Pancreatic Islet
47	chr3:47356600-47361200	Weak transcription	Brain Angular Gyrus	brain
48	chr3:47356800-47361200	Weak transcription	Fetal Muscle Leg	muscle
49	chr3:47356800-47382600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
50	chr3:47357000-47361200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links