Variant report

Variant	rs28498879
Chromosome Location	chr15:77957375-77957376
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr15:77956274..77958726-chr15:77958972..77961104,2	MCF-7	breast:
2	chr15:77956759..77959343-chr15:77962913..77965567,2	MCF-7	breast:
3	chr15:77951375..77953025-chr15:77956925..77958441,2	K562	blood:
4	chr15:77950654..77952875-chr15:77956941..77959692,2	K562	blood:
5	chr15:77939682..77942275-chr15:77956399..77958298,2	MCF-7	breast:
6	chr15:77955147..77957967-chr15:77958627..77961256,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000259281	Chromatin interaction

Extended variants
information (count: 44 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:37)

rs_ID	r²[population]
rs11853548	1.00[EUR][1000 genomes]
rs11853824	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11854532	1.00[EUR][1000 genomes]
rs11855576	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11857529	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12324340	1.00[EUR][1000 genomes]
rs2667765	1.00[EUR][1000 genomes]
rs28439897	1.00[EUR][1000 genomes]
rs28498563	1.00[EUR][1000 genomes]
rs28557414	1.00[EUR][1000 genomes]
rs28634734	1.00[EUR][1000 genomes]
rs28635388	1.00[EUR][1000 genomes]
rs34611551	1.00[EUR][1000 genomes]
rs57215429	1.00[EUR][1000 genomes]
rs57365401	1.00[EUR][1000 genomes]
rs57738968	1.00[EUR][1000 genomes]
rs58372659	1.00[EUR][1000 genomes]
rs58432220	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs58490956	1.00[EUR][1000 genomes]
rs58723442	1.00[EUR][1000 genomes]
rs58745170	1.00[EUR][1000 genomes]
rs59320137	1.00[EUR][1000 genomes]
rs60322323	1.00[EUR][1000 genomes]
rs60380768	1.00[EUR][1000 genomes]
rs60772286	1.00[EUR][1000 genomes]
rs6495243	1.00[EUR][1000 genomes]
rs7181139	1.00[EUR][1000 genomes]
rs7182984	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73448973	1.00[EUR][1000 genomes]
rs73450724	1.00[EUR][1000 genomes]
rs73450959	1.00[EUR][1000 genomes]
rs74025393	1.00[EUR][1000 genomes]
rs8037835	1.00[EUR][1000 genomes]
rs8038325	1.00[EUR][1000 genomes]
rs907375	1.00[EUR][1000 genomes]
rs907394	1.00[EUR][1000 genomes]
rs907397	1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 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	nsv904416	chr15:77845959-77967416	Enhancers Flanking Active TSS Bivalent Enhancer Weak transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Active TSS Strong transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
6	nsv904418	chr15:77851535-77963887	Weak transcription Enhancers Bivalent/Poised TSS Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
7	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

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:77947000-77965200	Enhancers	Fetal Brain Male	brain
2	chr15:77954600-77957400	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
3	chr15:77955200-77957800	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
4	chr15:77955600-77957600	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
5	chr15:77955600-77957800	Enhancers	ES-I3 Cell Line	embryonic stem cell
6	chr15:77956600-77957400	Enhancers	Fetal Muscle Leg	muscle
7	chr15:77956800-77957600	Enhancers	Fetal Brain Female	brain
8	chr15:77956800-77957800	Enhancers	Spleen	Spleen
9	chr15:77956800-77958400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
10	chr15:77956800-77959800	Weak transcription	Brain Cingulate Gyrus	brain
11	chr15:77956800-77986800	Weak transcription	Brain Angular Gyrus	brain
12	chr15:77957000-77958600	Weak transcription	HUES6 Cell Line	embryonic stem cell
13	chr15:77957200-77959400	Weak transcription	Brain Inferior Temporal Lobe	brain

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