Variant report

Variant	rs12915704
Chromosome Location	chr15:78015203-78015204
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	HMGN3	chr15:78015083-78015283	K562	blood:	n/a	n/a
2	CTCF	chr15:78015163-78015379	K562	blood:	n/a	chr15:78015300-78015309 chr15:78015265-78015278
3	CTCF	chr15:78015200-78015350	GM06990	blood:	n/a	chr15:78015300-78015309 chr15:78015265-78015278
4	RAD21	chr15:78015171-78015387	H1-hESC	embryonic stem cell:	n/a	chr15:78015266-78015279
5	CTCF	chr15:78015120-78015270	GM12874	blood:	n/a	n/a
6	CTCF	chr15:78015160-78015310	HCT-116	colon:	n/a	chr15:78015300-78015309 chr15:78015265-78015278
7	CTCF	chr15:78015180-78015330	Caco-2	colon:	n/a	chr15:78015300-78015309 chr15:78015265-78015278
8	ZNF143	chr15:78015166-78015751	H1-hESC	embryonic stem cell:	n/a	n/a
9	RAD21	chr15:78014994-78015789	H1-hESC	embryonic stem cell:	n/a	chr15:78015266-78015279
10	CTCF	chr15:78015200-78015350	A549	lung:	n/a	chr15:78015300-78015309 chr15:78015265-78015278
11	CTCF	chr15:78015200-78015350	NB4	blood:	n/a	chr15:78015300-78015309 chr15:78015265-78015278
12	CTCF	chr15:78015118-78015491	H1-hESC	embryonic stem cell:	n/a	chr15:78015300-78015309 chr15:78015265-78015278
13	CTCF	chr15:78015083-78015483	H1-hESC	embryonic stem cell:	n/a	chr15:78015300-78015309 chr15:78015265-78015278
14	CTCF	chr15:78015180-78015330	HFF-Myc	foreskin:	n/a	chr15:78015300-78015309 chr15:78015265-78015278
15	CTCF	chr15:78015109-78015429	K562	blood:	n/a	chr15:78015300-78015309 chr15:78015265-78015278
16	CTCF	chr15:78015166-78015359	K562	blood:	n/a	chr15:78015300-78015309 chr15:78015265-78015278
17	CTCF	chr15:78015108-78015464	K562	blood:	n/a	chr15:78015300-78015309 chr15:78015265-78015278

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr15:77996121..77999450-chr15:78013163..78015366,3	K562	blood:

Variant related genes	Relation type
LINGO1	TF binding region

Extended variants
information (count: 39 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:29)

rs_ID	r²[population]
rs11072662	0.83[EUR][1000 genomes]
rs11072663	0.81[EUR][1000 genomes]
rs11072665	0.82[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs11629729	0.81[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs11631410	0.87[EUR][1000 genomes]
rs11637588	0.85[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs11856761	0.87[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs12911718	0.83[EUR][1000 genomes]
rs28406214	0.83[EUR][1000 genomes]
rs34906247	0.83[EUR][1000 genomes]
rs35028279	0.83[EUR][1000 genomes]
rs35761651	0.83[EUR][1000 genomes]
rs36058724	0.84[EUR][1000 genomes]
rs4073356	0.86[EUR][1000 genomes]
rs4076998	0.81[EUR][1000 genomes]
rs4334265	0.83[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs4360891	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs4477663	0.84[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs4578613	0.83[EUR][1000 genomes]
rs4595768	0.83[EUR][1000 genomes]
rs4886521	0.83[EUR][1000 genomes]
rs4886898	0.83[EUR][1000 genomes]
rs4886902	0.90[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs56370262	0.83[EUR][1000 genomes]
rs6495245	0.87[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs7175083	0.83[EUR][1000 genomes]
rs7176668	0.82[EUR][1000 genomes]
rs8027520	0.85[EUR][1000 genomes]
rs8027667	0.87[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:10 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1040852	chr15:77160237-78137541	Enhancers Flanking Active TSS Active TSS Strong transcription Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	42 gene(s)	inside rSNPs	diseases
2	nsv916323	chr15:77485765-78121259	Enhancers Strong transcription Weak transcription Genic enhancers Bivalent Enhancer Active TSS Bivalent/Poised TSS Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
3	nsv833060	chr15:77816654-78035204	Weak transcription Bivalent Enhancer Enhancers Genic enhancers Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Strong transcription Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
4	esv1806097	chr15:77817889-78301377	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	30 gene(s)	inside rSNPs	diseases
5	nsv529491	chr15:77932659-78751516	Genic enhancers Bivalent Enhancer Enhancers Weak transcription Strong transcription Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	80 gene(s)	inside rSNPs	diseases
6	nsv570141	chr15:77985554-78017361	Weak transcription Enhancers Bivalent/Poised TSS Bivalent Enhancer Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
7	nsv570143	chr15:77993282-78017361	Weak transcription Enhancers Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
8	nsv833061	chr15:77998374-78121905	Bivalent/Poised TSS Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Active TSS Genic enhancers Transcr. at gene 5' and 3' Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
9	nsv570150	chr15:78004743-78038124	Enhancers Bivalent Enhancer Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
10	nsv570159	chr15:78008843-78022087	Enhancers Bivalent Enhancer Weak transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:17 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:78007000-78016600	Weak transcription	Brain Angular Gyrus	brain
2	chr15:78010000-78015800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
3	chr15:78012000-78015800	Weak transcription	Fetal Heart	heart
4	chr15:78012400-78016000	Weak transcription	Brain Inferior Temporal Lobe	brain
5	chr15:78013000-78031200	Weak transcription	Fetal Brain Female	brain
6	chr15:78013200-78017000	Weak transcription	K562	blood
7	chr15:78013400-78016000	Weak transcription	Fetal Brain Male	brain
8	chr15:78013600-78016200	Weak transcription	Fetal Muscle Leg	muscle
9	chr15:78014000-78031000	Weak transcription	Spleen	Spleen
10	chr15:78014600-78016800	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
11	chr15:78015000-78015800	Enhancers	HUES64 Cell Line	embryonic stem cell
12	chr15:78015000-78016000	Enhancers	ES-I3 Cell Line	embryonic stem cell
13	chr15:78015000-78016000	Enhancers	iPS-15b Cell Line	embryonic stem cell
14	chr15:78015200-78015400	Enhancers	ES-WA7 Cell Line	embryonic stem cell
15	chr15:78015200-78015400	Bivalent Enhancer	Foreskin Melanocyte Primary Cells skin01	Skin
16	chr15:78015200-78016000	Enhancers	H1 Cell Line	embryonic stem cell
17	chr15:78015200-78016800	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell

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