Variant report

Variant	rs9384545
Chromosome Location	chr6:150811384-150811385
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:150807751..150809812-chr6:150811234..150814298,3	K562	blood:
2	chr6:150800512..150803479-chr6:150810319..150812165,2	MCF-7	breast:
3	chr6:150806855..150809448-chr6:150811234..150813450,2	K562	blood:

Extended variants
information (count: 40 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:38)

rs_ID	r²[population]
rs10499263	0.93[CEU][hapmap];0.85[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.95[TSI][hapmap];0.88[EUR][1000 genomes]
rs10499264	0.86[EUR][1000 genomes]
rs11964142	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13193322	0.85[AMR][1000 genomes];0.99[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs13196518	0.85[AMR][1000 genomes];0.99[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs13197203	0.87[EUR][1000 genomes]
rs13199757	0.86[EUR][1000 genomes]
rs13206793	0.85[AMR][1000 genomes];0.99[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs13217733	0.85[EUR][1000 genomes]
rs13218019	0.88[EUR][1000 genomes]
rs17079805	0.85[AMR][1000 genomes];0.99[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs17079846	0.87[EUR][1000 genomes]
rs17079852	0.87[EUR][1000 genomes]
rs17079861	0.87[EUR][1000 genomes]
rs33951563	0.88[EUR][1000 genomes]
rs34120777	0.85[EUR][1000 genomes]
rs34219471	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34393000	0.86[EUR][1000 genomes]
rs34537150	0.95[EUR][1000 genomes]
rs34597508	0.86[EUR][1000 genomes]
rs34713924	0.87[EUR][1000 genomes]
rs34779574	0.86[EUR][1000 genomes]
rs34782866	0.85[AMR][1000 genomes];0.99[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs35046394	0.87[EUR][1000 genomes]
rs35260192	0.87[EUR][1000 genomes]
rs4075592	0.85[AMR][1000 genomes];0.84[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs4323319	0.93[CEU][hapmap];0.85[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.95[TSI][hapmap];0.88[EUR][1000 genomes]
rs4566894	0.88[EUR][1000 genomes]
rs55673001	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55708277	0.85[EUR][1000 genomes]
rs59435275	0.85[EUR][1000 genomes]
rs67925488	0.87[EUR][1000 genomes]
rs6924786	0.85[AMR][1000 genomes];0.99[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs73002876	0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7774671	0.87[EUR][1000 genomes]
rs9398002	0.83[EUR][1000 genomes]
rs9398004	0.82[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs9688466	0.86[EUR][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	nsv1020067	chr6:150730783-150870708	Enhancers Flanking Active TSS Weak transcription Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
2	nsv886772	chr6:150743364-151024280	Enhancers Active TSS Weak transcription Strong transcription Bivalent Enhancer Bivalent/Poised TSS Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs9384545	PCMT1	cis	parietal	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:150808000-150811400	Weak transcription	Fetal Muscle Leg	muscle
2	chr6:150808000-150812200	Weak transcription	Skeletal Muscle Male	skeletal muscle
3	chr6:150808000-150812400	Weak transcription	HUVEC	blood vessel
4	chr6:150808200-150811400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
5	chr6:150810200-150811800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
6	chr6:150811200-150812200	Enhancers	HMEC	breast
7	chr6:150811200-150812600	Enhancers	Placenta Amnion	Placenta Amnion
8	chr6:150811200-150813200	Enhancers	Fetal Thymus	thymus
9	chr6:150811200-150815800	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links