Variant report

Variant	rs10401852
Chromosome Location	chr19:56763967-56763968
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:9)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

No data

(count:9 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr19:56591684..56592579-chr19:56763878..56764497,2	K562	blood:
2	chr19:56577493..56578453-chr19:56763955..56765293,5	K562	blood:
3	chr19:56153237..56155682-chr19:56762217..56764183,2	K562	blood:
4	chr19:56763438..56764980-chr19:56767122..56769734,2	K562	blood:
5	chr19:56587441..56588336-chr19:56763861..56764794,5	MCF-7	breast:
6	chr19:56616218..56617192-chr19:56763915..56764470,3	MCF-7	breast:
7	chr19:56577493..56578448-chr19:56763612..56764760,5	MCF-7	breast:
8	chr19:56763855..56765502-chr19:56825187..56827361,2	K562	blood:
9	chr19:56167793..56169420-chr19:56762867..56764897,2	K562	blood:

No data

No data

No data

Variant related genes	Relation type
ENSG00000171425	Chromatin interaction
ENSG00000223060	Chromatin interaction
ENSG00000267522	Chromatin interaction
ENSG00000267549	Chromatin interaction
ENSG00000131848	Chromatin interaction
ENSG00000213015	Chromatin interaction

Extended variants
information (count: 16 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:8)

rs_ID	r²[population]
rs10420275	0.96[YRI][hapmap];0.87[AFR][1000 genomes]
rs12104157	1.00[EUR][1000 genomes]
rs12104316	1.00[EUR][1000 genomes]
rs28715006	1.00[EUR][1000 genomes]
rs58167140	1.00[EUR][1000 genomes]
rs58477337	1.00[EUR][1000 genomes]
rs60994843	1.00[EUR][1000 genomes]
rs73621065	1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1064371	chr19:56418215-56842450	ZNF genes & repeats Strong transcription Enhancers Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Weak transcription Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	65 gene(s)	inside rSNPs	diseases
2	nsv1057316	chr19:56418215-56849458	Strong transcription Enhancers ZNF genes & repeats Weak transcription Genic enhancers Flanking Active TSS Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	65 gene(s)	inside rSNPs	diseases
3	nsv912516	chr19:56601298-56981382	Weak transcription Strong transcription Flanking Active TSS ZNF genes & repeats Enhancers Genic enhancers Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	93 gene(s)	inside rSNPs	diseases
4	nsv1058152	chr19:56703368-56805035	Active TSS Weak transcription Enhancers Flanking Active TSS Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
5	nsv544093	chr19:56703368-56805035	Weak transcription Enhancers ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh Active TSS Flanking Active TSS Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
6	nsv526325	chr19:56741186-56852035	Active TSS Strong transcription Enhancers Weak transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases
7	nsv1064389	chr19:56744629-56768232	ZNF genes & repeats Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer Bivalent/Poised TSS	TF binding region Chromatin interactive region	9 gene(s)	inside rSNPs	diseases
8	nsv949121	chr19:56754719-57591038	ZNF genes & repeats Strong transcription Active TSS Weak transcription Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	98 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:11 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr19:56729200-56803000	Weak transcription	Pancreas	Pancrea
2	chr19:56735400-56774400	Weak transcription	Primary T cells from cord blood	blood
3	chr19:56747600-56781800	Weak transcription	Cortex derived primary cultured neurospheres	brain
4	chr19:56751000-56776400	Weak transcription	Lung	lung
5	chr19:56753000-56809000	Weak transcription	Gastric	stomach
6	chr19:56761400-56764200	Weak transcription	Primary hematopoietic stem cells short term culture	blood
7	chr19:56763600-56764200	ZNF genes & repeats	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
8	chr19:56763600-56764200	ZNF genes & repeats	A549	lung
9	chr19:56763600-56764600	Enhancers	K562	blood
10	chr19:56763800-56764000	ZNF genes & repeats	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
11	chr19:56763800-56764600	Enhancers	Spleen	Spleen

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dbSNP/dbVar ID: rs12345 /nsv7879
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