Variant report

Variant	rs4705732
Chromosome Location	chr5:114608596-114608597
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr5:114607630..114609862-chr5:114615334..114618265,2	MCF-7	breast:
2	chr5:114593990..114598856-chr5:114605325..114609897,4	K562	blood:
3	chr5:114604992..114607279-chr5:114608141..114610271,2	K562	blood:
4	chr5:114598595..114600612-chr5:114607394..114609348,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000271797	Chromatin interaction
ENSG00000164219	Chromatin interaction

Extended variants
information (count: 23 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:23)

rs_ID	r²[population]
rs10059320	0.91[JPT][hapmap]
rs10077453	1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs1017208	1.00[JPT][hapmap];0.86[ASN][1000 genomes]
rs11950355	0.84[CEU][hapmap];1.00[JPT][hapmap];0.84[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs17459144	1.00[CEU][hapmap];0.91[JPT][hapmap];0.81[AFR][1000 genomes];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2305130	1.00[JPT][hapmap]
rs28379874	0.89[ASN][1000 genomes]
rs2909842	0.89[ASN][1000 genomes]
rs2909843	0.81[CEU][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs2925185	0.80[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2925186	0.80[EUR][1000 genomes]
rs2963769	1.00[CEU][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2963770	0.81[CEU][hapmap];0.91[JPT][hapmap];0.89[ASN][1000 genomes]
rs2963771	1.00[JPT][hapmap];0.86[ASN][1000 genomes]
rs2963772	0.86[ASN][1000 genomes]
rs2963773	0.96[CEU][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];0.91[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2963774	0.91[JPT][hapmap];0.86[ASN][1000 genomes]
rs2964543	0.81[CEU][hapmap];1.00[JPT][hapmap];0.80[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2964544	1.00[JPT][hapmap];0.86[ASN][1000 genomes]
rs35948019	0.89[ASN][1000 genomes]
rs4041	1.00[JPT][hapmap]
rs7734074	0.84[CEU][hapmap];1.00[JPT][hapmap];0.83[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9326953	1.00[JPT][hapmap]

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs4705732	PGGT1B	cis	multi-tissue	Pritchard
rs4705732	PGGT1B	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:101 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:114598800-114612200	Weak transcription	Gastric	stomach
2	chr5:114598800-114613000	Weak transcription	Esophagus	oesophagus
3	chr5:114599000-114608800	Weak transcription	Brain Substantia Nigra	brain
4	chr5:114599000-114610200	Weak transcription	H9 Cell Line	embryonic stem cell
5	chr5:114599000-114610200	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
6	chr5:114599000-114610400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
7	chr5:114599000-114610600	Weak transcription	Pancreas	Pancrea
8	chr5:114599000-114610600	Weak transcription	NHLF	lung
9	chr5:114599000-114612200	Weak transcription	Right Ventricle	heart
10	chr5:114599000-114612800	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
11	chr5:114599000-114612800	Weak transcription	Primary T helper cells fromperipheralblood	blood
12	chr5:114599000-114612800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
13	chr5:114599000-114612800	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
14	chr5:114599000-114612800	Weak transcription	Fetal Intestine Large	intestine
15	chr5:114599000-114612800	Weak transcription	Fetal Thymus	thymus
16	chr5:114599000-114614200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
17	chr5:114599000-114617000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
18	chr5:114599000-114617200	Weak transcription	Thymus	Thymus
19	chr5:114599000-114624000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
20	chr5:114599000-114626600	Weak transcription	Pancreatic Islets	Pancreatic Islet
21	chr5:114599000-114630800	Weak transcription	Psoas Muscle	Psoas
22	chr5:114599000-114631200	Weak transcription	Primary hematopoietic stem cells	blood
23	chr5:114599000-114631200	Weak transcription	HSMM	muscle
24	chr5:114599000-114631400	Weak transcription	Left Ventricle	heart
25	chr5:114599200-114608800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
26	chr5:114599200-114608800	Weak transcription	Stomach Smooth Muscle	stomach
27	chr5:114599200-114609200	Weak transcription	Duodenum Smooth Muscle	Duodenum
28	chr5:114599200-114609200	Weak transcription	Skeletal Muscle Male	skeletal muscle
29	chr5:114599200-114609400	Weak transcription	Colonic Mucosa	Colon
30	chr5:114599200-114610200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
31	chr5:114599200-114610400	Weak transcription	Brain Cingulate Gyrus	brain
32	chr5:114599200-114610400	Weak transcription	Fetal Lung	lung
33	chr5:114599200-114610400	Weak transcription	A549	lung
34	chr5:114599200-114611000	Weak transcription	Ovary	ovary
35	chr5:114599200-114611800	Weak transcription	Fetal Kidney	kidney
36	chr5:114599200-114612000	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
37	chr5:114599200-114612600	Weak transcription	NH-A	brain
38	chr5:114599200-114612800	Weak transcription	Primary T helper cells PMA-I stimulated	--
39	chr5:114599200-114615000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
40	chr5:114599200-114615000	Weak transcription	Fetal Brain Male	brain
41	chr5:114599200-114616400	Weak transcription	Fetal Heart	heart
42	chr5:114599200-114622000	Weak transcription	Colon Smooth Muscle	Colon
43	chr5:114599200-114631200	Weak transcription	Rectal Smooth Muscle	rectum
44	chr5:114599400-114608800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
45	chr5:114599400-114610600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
46	chr5:114599400-114612200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
47	chr5:114599400-114613400	Weak transcription	Hela-S3	cervix
48	chr5:114599400-114615600	Weak transcription	Brain Anterior Caudate	brain
49	chr5:114599400-114621800	Weak transcription	Brain Angular Gyrus	brain
50	chr5:114599600-114612200	Weak transcription	K562	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links