Variant report

Variant	rs55789113
Chromosome Location	chr20:40820470-40820471
allele	C/G
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:15)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

No data

(count:15 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr20:40820100..40822899-chr20:40823724..40826159,2	K562	blood:
2	chr17:56707797..56709429-chr20:40818930..40820570,2	MCF-7	breast:
3	chr20:40817829..40822981-chr20:46412840..46417309,8	MCF-7	breast:
4	chr20:40820340..40823978-chr20:40832975..40836310,5	MCF-7	breast:
5	chr20:40820436..40822965-chr20:55832782..55835561,2	MCF-7	breast:
6	chr20:40814293..40823247-chr20:55839406..55843117,11	MCF-7	breast:
7	chr20:40819860..40820709-chr20:55819320..55819883,2	MCF-7	breast:
8	chr20:40818601..40822972-chr20:55845195..55849784,5	MCF-7	breast:
9	chr20:40819411..40821827-chr3:64090120..64091647,2	MCF-7	breast:
10	chr20:40818040..40821638-chr3:64033448..64036264,3	MCF-7	breast:
11	chr20:40814621..40823038-chr20:55816699..55826328,24	MCF-7	breast:
12	chr20:40818180..40822172-chr20:40822774..40826315,5	MCF-7	breast:
13	chr20:40814194..40820510-chr20:55816660..55821393,15	MCF-7	breast:
14	chr20:40820217..40822683-chr20:52814569..52816751,2	MCF-7	breast:
15	chr20:40818651..40823257-chr20:40826391..40832084,7	MCF-7	breast:

No data

No data

No data

Variant related genes	Relation type
ENSG00000101144	Chromatin interaction
ENSG00000196562	Chromatin interaction
ENSG00000212195	Chromatin interaction
ENSG00000226308	Chromatin interaction

Extended variants
information (count: 13 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:11)

rs_ID	r²[population]
rs17221823	0.87[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs2903466	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55796708	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55889296	0.96[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs56039253	0.85[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs56256174	0.96[AMR][1000 genomes];0.93[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs56344866	0.89[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs73118438	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73120412	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73120420	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs73120444	0.96[AMR][1000 genomes];0.93[EUR][1000 genomes];0.83[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2751913	chr20:40422982-41269321	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Strong transcription Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	22 gene(s)	inside rSNPs	diseases
2	nsv532516	chr20:40451059-41097155	Weak transcription Strong transcription Enhancers Bivalent Enhancer Active TSS ZNF genes & repeats Flanking Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:7 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr20:40818400-40820800	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
2	chr20:40819000-40821000	Enhancers	ES-I3 Cell Line	embryonic stem cell
3	chr20:40819200-40822800	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
4	chr20:40820200-40821400	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
5	chr20:40820200-40822200	Enhancers	Gastric	stomach
6	chr20:40820400-40822200	Enhancers	Breast Myoepithelial Primary Cells	Breast
7	chr20:40820400-40828200	Weak transcription	Cortex derived primary cultured neurospheres	brain

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Input of quick search could be:

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

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