Variant report

Variant	rs7654329
Chromosome Location	chr4:166322978-166322979
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	chr4:166316542..166318609-chr4:166322064..166324233,2	MCF-7	breast:

Extended variants
information (count: 17 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:17)

rs_ID	r²[population]
rs10012690	0.83[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs10015323	0.90[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs1438119	0.83[GIH][hapmap];0.82[JPT][hapmap]
rs1543915	0.81[CEU][hapmap];0.87[GIH][hapmap];0.82[JPT][hapmap]
rs17624928	0.84[AFR][1000 genomes];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2164864	0.85[CEU][hapmap];0.83[GIH][hapmap];0.87[JPT][hapmap];0.87[MEX][hapmap];0.83[AMR][1000 genomes]
rs2241812	0.84[AMR][1000 genomes]
rs2241813	0.90[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs2241814	0.84[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs2241815	0.90[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs28530788	0.85[AMR][1000 genomes];0.97[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs4691193	0.90[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs6810964	0.96[CEU][hapmap];0.84[CHB][hapmap];0.94[JPT][hapmap];0.85[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs6837454	0.90[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs6837954	1.00[CEU][hapmap];0.85[CHB][hapmap];0.86[JPT][hapmap];0.89[YRI][hapmap];0.90[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs7699011	0.96[CEU][hapmap];0.81[JPT][hapmap];0.89[YRI][hapmap];0.90[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs934819	0.81[ASW][hapmap];0.96[CEU][hapmap];0.86[CHB][hapmap];0.95[GIH][hapmap];0.86[JPT][hapmap];0.86[MEX][hapmap];0.93[MKK][hapmap];0.89[TSI][hapmap];0.86[YRI][hapmap];0.90[AMR][1000 genomes];0.90[EUR][1000 genomes]

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs7654329	DDX60	cis	cerebellum	SCAN
rs7654329	NPY1R	cis	parietal	SCAN

Chromatin state (count:21 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:166304400-166332400	Weak transcription	Brain Angular Gyrus	brain
2	chr4:166305800-166330400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
3	chr4:166306600-166324800	Weak transcription	Fetal Stomach	stomach
4	chr4:166311400-166327400	Weak transcription	Skeletal Muscle Female	skeletal muscle
5	chr4:166315000-166325200	Weak transcription	Aorta	Aorta
6	chr4:166315800-166328000	Weak transcription	Ovary	ovary
7	chr4:166315800-166332600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
8	chr4:166318200-166330600	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
9	chr4:166318600-166323600	Enhancers	Pancreatic Islets	Pancreatic Islet
10	chr4:166319200-166332000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
11	chr4:166319600-166361800	Weak transcription	Brain Inferior Temporal Lobe	brain
12	chr4:166320000-166339000	Weak transcription	Brain Hippocampus Middle	brain
13	chr4:166320000-166339200	Weak transcription	Brain Substantia Nigra	brain
14	chr4:166320200-166325200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
15	chr4:166320200-166325600	Weak transcription	Cortex derived primary cultured neurospheres	brain
16	chr4:166320200-166332600	Weak transcription	Brain Cingulate Gyrus	brain
17	chr4:166321800-166323400	Weak transcription	Fetal Brain Male	brain
18	chr4:166322600-166323000	Strong transcription	Fetal Brain Female	brain
19	chr4:166322800-166323000	Enhancers	Brain Anterior Caudate	brain
20	chr4:166322800-166323400	Weak transcription	HepG2	liver
21	chr4:166322800-166327000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links