Variant report

Variant	rs1541910
Chromosome Location	chr5:150962527-150962528
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr5:150958636..150961292-chr5:150962210..150963817,2	K562	blood:
2	chr5:150962459..150965963-chr5:150966583..150970209,3	MCF-7	breast:
3	chr5:150942025..150944523-chr5:150961662..150964571,2	K562	blood:
4	chr5:150957894..150960136-chr5:150961110..150963817,2	K562	blood:

Extended variants
information (count: 48 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:48)

rs_ID	r²[population]
rs10044120	0.96[CEU][hapmap];0.89[CHB][hapmap];0.88[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs10052817	0.89[ASN][1000 genomes]
rs10060613	0.83[AFR][1000 genomes];0.90[ASN][1000 genomes]
rs10060662	0.86[CHB][hapmap];0.83[JPT][hapmap];0.83[AFR][1000 genomes];0.88[ASN][1000 genomes]
rs10069540	0.83[CHD][hapmap];0.81[TSI][hapmap]
rs10071034	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs10072841	0.96[CEU][hapmap];0.89[CHB][hapmap];0.86[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs10074454	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs10079712	0.85[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs10085060	0.83[CHD][hapmap];0.81[TSI][hapmap]
rs11746958	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs11750312	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs12055366	0.84[JPT][hapmap];0.85[ASN][1000 genomes]
rs13166858	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs13167092	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs13187324	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs1432862	0.83[CHB][hapmap];0.83[CHD][hapmap];0.81[TSI][hapmap]
rs1432866	0.90[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs1541909	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs1835944	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs2304053	0.83[CHB][hapmap];0.88[CHD][hapmap];0.82[JPT][hapmap];0.82[MEX][hapmap];0.81[TSI][hapmap];0.84[YRI][hapmap];0.89[ASN][1000 genomes]
rs2304054	0.85[CHD][hapmap];0.81[TSI][hapmap]
rs35211425	0.90[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs3734055	0.83[CHD][hapmap];0.81[TSI][hapmap]
rs3734057	0.83[CHD][hapmap];0.81[TSI][hapmap]
rs3734058	0.83[CHB][hapmap];0.83[CHD][hapmap];0.81[TSI][hapmap]
rs3734059	0.83[CHB][hapmap];0.83[CHD][hapmap];0.80[TSI][hapmap]
rs3734060	0.83[CHB][hapmap];0.83[CHD][hapmap];0.81[TSI][hapmap]
rs4314387	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs4376256	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs4416593	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs4416594	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs4416595	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs4452546	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs6879740	0.85[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6880902	0.90[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs6890712	0.84[YRI][hapmap]
rs7708267	0.81[AMR][1000 genomes]
rs7709576	0.90[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs7710596	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs7719117	0.82[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs7724472	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7732813	0.82[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs7737011	0.84[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs7737419	0.91[CEU][hapmap];0.81[CHB][hapmap];0.84[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs9324700	0.83[CHB][hapmap];0.83[CHD][hapmap];0.81[TSI][hapmap]
rs9918229	0.89[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs9918283	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes]

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs1541910	RPS14	cis	parietal	SCAN
rs1541910	SAP30L	cis	parietal	SCAN

Chromatin state (count:18 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:150959400-150965600	Weak transcription	Pancreas	Pancrea
2	chr5:150959600-150967400	Enhancers	Breast Myoepithelial Primary Cells	Breast
3	chr5:150960000-150962600	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
4	chr5:150960600-150965600	Weak transcription	Adipose Nuclei	Adipose
5	chr5:150961000-150962600	Flanking Active TSS	NHEK	skin
6	chr5:150961600-150962600	Flanking Active TSS	Foreskin Keratinocyte Primary Cells skin03	Skin
7	chr5:150961600-150963800	Weak transcription	Esophagus	oesophagus
8	chr5:150961800-150968600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
9	chr5:150961800-150970400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
10	chr5:150962000-150962600	Enhancers	Fetal Thymus	thymus
11	chr5:150962000-150963800	Enhancers	HMEC	breast
12	chr5:150962000-150965400	Weak transcription	Placenta	Placenta
13	chr5:150962000-150965400	Weak transcription	Skeletal Muscle Male	skeletal muscle
14	chr5:150962000-150965400	Weak transcription	Skeletal Muscle Female	skeletal muscle
15	chr5:150962000-150965600	Weak transcription	H1 Cell Line	embryonic stem cell
16	chr5:150962000-150965600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
17	chr5:150962400-150962600	Transcr. at gene 5' and 3'	Foreskin Keratinocyte Primary Cells skin02	Skin
18	chr5:150962400-150962600	Enhancers	Fetal Muscle Leg	muscle

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links