Variant report

Variant	rs10733754
Chromosome Location	chr9:93168230-93168231
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr9:93166885..93169792-chr9:93181807..93183365,2	MCF-7	breast:
2	chr9:93160898..93163217-chr9:93166360..93169284,2	K562	blood:
3	chr9:93167062..93168707-chr9:93170210..93172372,2	MCF-7	breast:

Extended variants
information (count: 25 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:20)

rs_ID	r²[population]
rs12685168	0.84[CHB][hapmap]
rs1365368	0.85[AMR][1000 genomes];0.91[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1576290	0.81[ASN][1000 genomes]
rs1887906	0.81[ASN][1000 genomes]
rs2114345	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.85[AMR][1000 genomes];0.90[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2114346	1.00[CEU][hapmap];0.92[CHB][hapmap];1.00[JPT][hapmap];0.90[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2114347	0.81[ASN][1000 genomes]
rs2798041	1.00[JPT][hapmap]
rs4743992	0.86[CHB][hapmap]
rs4744384	0.81[ASN][1000 genomes]
rs4744434	0.85[AMR][1000 genomes];0.91[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6479594	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[CHD][hapmap];0.88[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.91[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6479602	1.00[CEU][hapmap];1.00[CHB][hapmap];0.85[AMR][1000 genomes];0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7037348	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.81[MKK][hapmap];0.96[TSI][hapmap];0.85[AMR][1000 genomes];0.86[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7851238	0.81[ASN][1000 genomes]
rs7865399	0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs890427	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[YRI][hapmap];0.85[AMR][1000 genomes];0.85[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs890428	0.91[ASN][1000 genomes]
rs981129	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[YRI][hapmap];0.85[AMR][1000 genomes];0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs992224	0.87[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1041278	chr9:92965701-93560454	Enhancers Weak transcription Bivalent Enhancer Active TSS Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
2	nsv482748	chr9:93123377-93279526	Weak transcription Enhancers Genic enhancers Bivalent Enhancer Active TSS Bivalent/Poised TSS Strong transcription Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
3	nsv893565	chr9:93130796-93392332	Genic enhancers Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Strong transcription Active TSS ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
4	esv3483705	chr9:93162382-93194535	Enhancers Active TSS Weak transcription Flanking Active TSS Strong transcription Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
5	esv3483706	chr9:93162396-93194531	Enhancers Strong transcription Weak transcription Active TSS Flanking Active TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs10733754	SPTLC1	cis	parietal	SCAN

Chromatin state (count:13 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:93166600-93168400	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
2	chr9:93166600-93169600	Enhancers	iPS-15b Cell Line	embryonic stem cell
3	chr9:93166800-93168400	Enhancers	ES-I3 Cell Line	embryonic stem cell
4	chr9:93166800-93168400	Enhancers	HUES48 Cell Line	embryonic stem cell
5	chr9:93166800-93169000	Enhancers	HUES6 Cell Line	embryonic stem cell
6	chr9:93167000-93168400	Enhancers	iPS-20b Cell Line	embryonic stem cell
7	chr9:93167000-93169000	Enhancers	HUES64 Cell Line	embryonic stem cell
8	chr9:93167200-93168400	Enhancers	iPS-18 Cell Line	embryonic stem cell
9	chr9:93167200-93168800	Enhancers	Brain Germinal Matrix	brain
10	chr9:93167200-93169000	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
11	chr9:93167400-93170400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
12	chr9:93167600-93169400	Enhancers	Fetal Brain Male	brain
13	chr9:93167600-93170800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell

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