Variant report

Variant	rs56009204
Chromosome Location	chr1:153436793-153436794
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:2)
CpG islands
(count:0)
Chromatin interactive
region (count:3)
LncRNA
region (count:1)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

(count:2 , 50 per page) page: 1

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	POLR2A	chr1:153436308-153437805	K562	blood:	n/a	n/a
2	REST	chr1:153436791-153436989	ECC-1	luminal epithelium:	n/a	chr1:153436907-153436916

No data

(count:3 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr1:153329373..153332340-chr1:153432969..153437036,4	MCF-7	breast:
2	chr1:153435205..153438006-chr1:153456451..153458680,2	MCF-7	breast:
3	chr1:153413081..153415452-chr1:153435281..153437822,3	MCF-7	breast:

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

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-S100A7A-1	chr1:153433284-153441910	predAs_engstrom06_BM723462_1

No data

Variant related genes	Relation type
S100A7	TF binding region
ENSG00000163220	Chromatin interaction

Extended variants
information (count: 31 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:24)

rs_ID	r²[population]
rs11205297	0.88[ASN][1000 genomes]
rs12021612	0.89[ASN][1000 genomes]
rs12022550	0.89[ASN][1000 genomes]
rs12024114	0.87[ASN][1000 genomes]
rs12025638	0.89[ASN][1000 genomes]
rs12034788	0.83[ASN][1000 genomes]
rs12043556	0.81[ASN][1000 genomes]
rs12044034	0.98[ASN][1000 genomes]
rs12044491	0.84[ASN][1000 genomes]
rs12045252	0.87[ASN][1000 genomes]
rs12047203	0.92[ASN][1000 genomes]
rs12047494	0.90[ASN][1000 genomes]
rs12217109	0.88[ASN][1000 genomes]
rs16835332	0.89[ASN][1000 genomes]
rs16835339	0.89[ASN][1000 genomes]
rs2339695	0.89[ASN][1000 genomes]
rs28696717	0.81[ASN][1000 genomes]
rs2986209	0.89[ASN][1000 genomes]
rs3014848	0.89[ASN][1000 genomes]
rs41265152	0.84[ASN][1000 genomes]
rs55668683	0.83[ASN][1000 genomes]
rs55703007	0.82[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs72708746	0.84[ASN][1000 genomes]
rs72708789	0.90[ASN][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	nsv1010488	chr1:152901263-153670972	Genic enhancers Active TSS Strong transcription Bivalent/Poised TSS Weak transcription Flanking Active TSS Enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	236 gene(s)	inside rSNPs	diseases
2	nsv535171	chr1:152901263-153670972	Enhancers Flanking Active TSS Weak transcription Genic enhancers Bivalent Enhancer Strong transcription Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	236 gene(s)	inside rSNPs	diseases
3	nsv533877	chr1:152923645-153468131	Enhancers Weak transcription Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Active TSS Genic enhancers Transcr. at gene 5' and 3' Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	56 gene(s)	inside rSNPs	diseases
4	nsv1002705	chr1:153307852-153525589	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	152 gene(s)	inside rSNPs	diseases
5	nsv831603	chr1:153405842-153576143	Transcr. at gene 5' and 3' Bivalent Enhancer Weak transcription Enhancers Active TSS Flanking Active TSS Strong transcription Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	148 gene(s)	inside rSNPs	diseases
6	nsv1007306	chr1:153413827-153541798	Weak transcription Flanking Active TSS Enhancers Bivalent Enhancer Active TSS Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Strong transcription ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	146 gene(s)	inside rSNPs	diseases
7	nsv946399	chr1:153431838-153438343	Enhancers Bivalent Enhancer Weak transcription Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:3 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:153431000-153439000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
2	chr1:153433200-153438400	Weak transcription	Esophagus	oesophagus
3	chr1:153435800-153439200	Weak transcription	H9 Cell Line	embryonic stem cell

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