Variant report

Variant	rs3759917
Chromosome Location	chr15:92935447-92935448
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	MAX	chr15:92935045-92935712	H1-hESC	embryonic stem cell:	n/a	n/a
2	KAP1	chr15:92934784-92935505	HEK293	kidney:	n/a	n/a

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr15:92927559..92930317-chr15:92934349..92936037,2	MCF-7	breast:

Variant related genes	Relation type
ST8SIA2	TF binding region

Extended variants
information (count: 19 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:14)

rs_ID	r²[population]
rs12910290	0.81[TSI][hapmap]
rs12913269	0.81[TSI][hapmap]
rs13379489	0.87[CEU][hapmap];0.94[JPT][hapmap];0.96[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs16946839	0.81[TSI][hapmap]
rs3743364	0.85[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs3743365	0.85[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs3759915	0.84[AFR][1000 genomes]
rs3759918	0.95[LWK][hapmap];0.92[MKK][hapmap];0.86[TSI][hapmap];0.89[YRI][hapmap];0.87[AFR][1000 genomes]
rs3759919	0.89[YRI][hapmap];0.87[AFR][1000 genomes]
rs3784745	0.88[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs56027313	0.90[EUR][1000 genomes]
rs7173401	0.81[TSI][hapmap]
rs7175280	0.85[CEU][hapmap];0.86[CHB][hapmap];0.93[CHD][hapmap];0.94[JPT][hapmap];0.87[MEX][hapmap];1.00[TSI][hapmap];0.80[AMR][1000 genomes];0.98[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs8041550	0.82[MKK][hapmap];0.86[TSI][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	nsv948621	chr15:92688981-93158095	Enhancers Bivalent/Poised TSS ZNF genes & repeats Weak transcription Strong transcription Genic enhancers Flanking Active TSS Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	28 gene(s)	inside rSNPs	diseases
2	nsv1049561	chr15:92758434-93097965	Enhancers Weak transcription Bivalent/Poised TSS Active TSS Genic enhancers Flanking Active TSS Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
3	nsv1037972	chr15:92804908-93270761	Flanking Bivalent TSS/Enh Enhancers Weak transcription Strong transcription Flanking Active TSS Bivalent Enhancer Active TSS ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	39 gene(s)	inside rSNPs	diseases
4	nsv869844	chr15:92881526-92935448	Flanking Active TSS Enhancers Weak transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
5	nsv904499	chr15:92914795-93472582	Bivalent Enhancer Flanking Active TSS Genic enhancers Strong transcription Active TSS Transcr. at gene 5' and 3' Weak transcription Enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	163 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs3759917	MESP2	cis	parietal	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:92932600-92935600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
2	chr15:92935000-92935600	Bivalent Enhancer	HUES64 Cell Line	embryonic stem cell
3	chr15:92935000-92936400	Enhancers	Fetal Brain Male	brain
4	chr15:92935200-92935600	Bivalent/Poised TSS	iPS-15b Cell Line	embryonic stem cell
5	chr15:92935200-92935600	Bivalent Enhancer	iPS DF 19.11 Cell Line	embryonic stem cell
6	chr15:92935200-92935800	Bivalent Enhancer	HUES48 Cell Line	embryonic stem cell
7	chr15:92935200-92935800	Flanking Bivalent TSS/Enh	HUES6 Cell Line	embryonic stem cell
8	chr15:92935200-92936400	Bivalent Enhancer	ES-UCSF4 Cell Line	embryonic stem cell
9	chr15:92935200-92936400	Bivalent Enhancer	Fetal Thymus	thymus
10	chr15:92935400-92935600	Bivalent Enhancer	H9 Cell Line	embryonic stem cell
11	chr15:92935400-92935600	Enhancers	Fetal Brain Female	brain
12	chr15:92935400-92935800	Bivalent Enhancer	H1 Cell Line	embryonic stem cell
13	chr15:92935400-92935800	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
14	chr15:92935400-92935800	Bivalent Enhancer	Stomach Smooth Muscle	stomach
15	chr15:92935400-92936400	Bivalent Enhancer	Fetal Muscle Trunk	muscle
16	chr15:92935400-92936400	Bivalent Enhancer	Fetal Muscle Leg	muscle
17	chr15:92935400-92936600	Flanking Bivalent TSS/Enh	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
18	chr15:92935400-92936600	Flanking Bivalent TSS/Enh	iPS-20b Cell Line	embryonic stem cell
19	chr15:92935400-92936600	Flanking Active TSS	Brain Germinal Matrix	brain
20	chr15:92935400-92938400	Bivalent/Poised TSS	iPS-18 Cell Line	embryonic stem cell
21	chr15:92935400-92938800	Bivalent/Poised TSS	ES-I3 Cell Line	embryonic stem cell

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