Variant report

Variant	rs3759919
Chromosome Location	chr15:92935272-92935273
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:18)
CpG islands
(count:0)
Chromatin interactive
region (count:1)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

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

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	CTCF	chr15:92934789-92935362	MCF-7	breast:	n/a	n/a
2	CTCF	chr15:92934712-92935310	A549	lung:	n/a	n/a
3	CTCF	chr15:92934939-92935378	HCT-116	colon:	n/a	n/a
4	RAD21	chr15:92934773-92935345	MCF-7	breast:	n/a	n/a
5	RAD21	chr15:92934739-92935361	HCT-116	colon:	n/a	n/a
6	RAD21	chr15:92934781-92935286	H1-hESC	embryonic stem cell:	n/a	n/a
7	MAX	chr15:92935045-92935712	H1-hESC	embryonic stem cell:	n/a	n/a
8	RAD21	chr15:92934805-92935362	HCT-116	colon:	n/a	n/a
9	RAD21	chr15:92934751-92935375	A549	lung:	n/a	n/a
10	CTCF	chr15:92934675-92935388	SK-N-SH	brain:	n/a	n/a
11	CTCF	chr15:92934764-92935355	MCF-7	breast:	n/a	n/a
12	CTCF	chr15:92934797-92935274	H1-hESC	embryonic stem cell:	n/a	n/a
13	RAD21	chr15:92934883-92935293	H1-hESC	embryonic stem cell:	n/a	n/a
14	KAP1	chr15:92934784-92935505	HEK293	kidney:	n/a	n/a
15	CTCF	chr15:92934799-92935427	HCT-116	colon:	n/a	n/a
16	RAD21	chr15:92934816-92935278	SK-N-SH	brain:	n/a	n/a
17	ZNF263	chr15:92934919-92935373	HEK293-T-REx	kidney:	n/a	n/a
18	RAD21	chr15:92934850-92935356	MCF-7	breast:	n/a	n/a

No data

(count:1 , 50 per page) page: 1

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

No data

No data

No data

Extended variants
information (count: 20 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:15)

rs_ID	r²[population]
rs11630035	0.96[EUR][1000 genomes]
rs12910290	0.95[EUR][1000 genomes]
rs12913269	0.92[EUR][1000 genomes]
rs16946839	0.93[EUR][1000 genomes]
rs16946843	0.95[EUR][1000 genomes]
rs2129796	0.92[EUR][1000 genomes]
rs2129797	0.92[EUR][1000 genomes]
rs3759915	0.84[AFR][1000 genomes]
rs3759917	0.89[YRI][hapmap];0.87[AFR][1000 genomes]
rs3759918	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7171140	0.93[EUR][1000 genomes]
rs7173401	0.96[EUR][1000 genomes]
rs8035924	0.95[EUR][1000 genomes]
rs8040424	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs8041550	0.90[CHB][hapmap];0.95[JPT][hapmap];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]

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

No data

Chromatin state (count:19 , 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	chr15:92932800-92935400	Weak transcription	Brain Germinal Matrix	brain
3	chr15:92934000-92935400	Weak transcription	Fetal Brain Female	brain
4	chr15:92935000-92935400	Bivalent Enhancer	iPS-18 Cell Line	embryonic stem cell
5	chr15:92935000-92935600	Bivalent Enhancer	HUES64 Cell Line	embryonic stem cell
6	chr15:92935000-92936400	Enhancers	Fetal Brain Male	brain
7	chr15:92935200-92935400	Bivalent Enhancer	ES-I3 Cell Line	embryonic stem cell
8	chr15:92935200-92935400	Bivalent Enhancer	ES-WA7 Cell Line	embryonic stem cell
9	chr15:92935200-92935400	Flanking Bivalent TSS/Enh	H1 Cell Line	embryonic stem cell
10	chr15:92935200-92935400	Bivalent Enhancer	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
11	chr15:92935200-92935400	Bivalent Enhancer	iPS-20b Cell Line	embryonic stem cell
12	chr15:92935200-92935400	Bivalent Enhancer	Primary neutrophils fromperipheralblood	blood
13	chr15:92935200-92935400	Bivalent Enhancer	Brain Dorsolateral Prefrontal Cortex	brain
14	chr15:92935200-92935600	Bivalent/Poised TSS	iPS-15b Cell Line	embryonic stem cell
15	chr15:92935200-92935600	Bivalent Enhancer	iPS DF 19.11 Cell Line	embryonic stem cell
16	chr15:92935200-92935800	Bivalent Enhancer	HUES48 Cell Line	embryonic stem cell
17	chr15:92935200-92935800	Flanking Bivalent TSS/Enh	HUES6 Cell Line	embryonic stem cell
18	chr15:92935200-92936400	Bivalent Enhancer	ES-UCSF4 Cell Line	embryonic stem cell
19	chr15:92935200-92936400	Bivalent Enhancer	Fetal Thymus	thymus

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dbSNP/dbVar ID: rs12345 /nsv7879
a single nucleotide as 0-based coordinates: chr1:12345
chromosomal regions: chr1:12345-34567

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