Variant report

Variant	rs33568
Chromosome Location	chr5:112304202-112304203
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr5:112256092..112257666-chr5:112304099..112305751,2	MCF-7	breast:
2	chr5:112303578..112305254-chr5:112311850..112314177,2	MCF-7	breast:
3	chr5:112298220..112301576-chr5:112303525..112306248,4	K562	blood:
4	chr5:112295383..112297610-chr5:112302677..112305586,2	K562	blood:
5	chr5:112299891..112302551-chr5:112304057..112307148,4	K562	blood:

Variant related genes	Relation type
ENSG00000172795	Chromatin interaction
ENSG00000129625	Chromatin interaction

Extended variants
information (count: 39 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:35)

rs_ID	r²[population]
rs1057474	0.86[CHB][hapmap];0.86[JPT][hapmap]
rs13156493	0.86[CHB][hapmap];0.94[JPT][hapmap]
rs13177101	0.81[CHB][hapmap];0.90[JPT][hapmap]
rs13186334	0.81[CHB][hapmap];0.90[JPT][hapmap];1.00[YRI][hapmap]
rs13445	0.82[CHB][hapmap]
rs1363333	0.85[CHB][hapmap];0.85[JPT][hapmap]
rs1549181	0.85[CHB][hapmap];0.85[JPT][hapmap]
rs17372511	0.90[CHB][hapmap];0.90[JPT][hapmap]
rs2112454	0.90[CHB][hapmap];0.95[JPT][hapmap]
rs2416300	0.85[CHB][hapmap];0.94[JPT][hapmap]
rs3185733	0.86[CHB][hapmap];0.81[JPT][hapmap]
rs33544	0.92[CEU][hapmap];0.85[CHB][hapmap];0.95[JPT][hapmap];0.86[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs33545	0.86[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs33548	0.86[AMR][1000 genomes];0.87[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs33549	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs33551	0.92[CEU][hapmap];0.81[CHB][hapmap];0.90[JPT][hapmap];0.83[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs33552	0.93[CEU][hapmap];0.91[JPT][hapmap];0.87[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs33554	0.96[CEU][hapmap];0.86[CHB][hapmap];0.95[JPT][hapmap];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs33557	0.92[CEU][hapmap];0.85[CHB][hapmap];0.90[JPT][hapmap];0.97[AMR][1000 genomes];0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs33558	0.85[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs33559	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs33560	0.90[AMR][1000 genomes];0.89[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs33561	0.85[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs33566	0.85[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs33569	0.82[CEU][hapmap];0.95[CHB][hapmap];0.81[JPT][hapmap];0.80[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs3857434	0.85[CHB][hapmap];0.85[JPT][hapmap];1.00[YRI][hapmap]
rs4075350	0.85[JPT][hapmap]
rs4705749	0.81[CHB][hapmap];0.82[JPT][hapmap];1.00[YRI][hapmap]
rs4705750	0.85[CHB][hapmap];0.85[JPT][hapmap]
rs4705752	0.81[CHB][hapmap];0.86[JPT][hapmap]
rs4778	0.82[CHB][hapmap];0.91[JPT][hapmap]
rs7670	0.81[CHB][hapmap];0.85[JPT][hapmap]
rs7701781	0.85[CHB][hapmap];0.85[JPT][hapmap]
rs9122	0.85[CHB][hapmap];0.85[JPT][hapmap];1.00[YRI][hapmap]
rs9784647	0.81[CHB][hapmap];0.90[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1029271	chr5:112113308-112325943	Strong transcription Bivalent Enhancer Weak transcription Enhancers Flanking Active TSS Genic enhancers Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	30 gene(s)	inside rSNPs	diseases
2	nsv599394	chr5:112185491-112446323	Weak transcription Active TSS Strong transcription Genic enhancers Enhancers Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	31 gene(s)	inside rSNPs	diseases
3	nsv1019756	chr5:112242315-112325943	Weak transcription Flanking Active TSS Enhancers Genic enhancers Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer Active TSS ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	20 gene(s)	inside rSNPs	diseases
4	nsv1028759	chr5:112300490-112358514	Weak transcription Genic enhancers Enhancers Flanking Active TSS Strong transcription Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region miRNA target site	13 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs33568	DCP2	Cis_1M	lymphoblastoid	RTeQTL
rs33568	DCP2	cis	Skin Sun Exposed Lower leg	GTEx

Chromatin state (count:30 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:112294000-112311800	Weak transcription	Right Atrium	heart
2	chr5:112294800-112304400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
3	chr5:112295200-112304400	Weak transcription	HUES64 Cell Line	embryonic stem cell
4	chr5:112297000-112304400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
5	chr5:112298200-112311800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
6	chr5:112300000-112305200	Weak transcription	NH-A	brain
7	chr5:112300000-112305600	Weak transcription	Skeletal Muscle Female	skeletal muscle
8	chr5:112300000-112307000	Weak transcription	Primary B cells from peripheral blood	blood
9	chr5:112300200-112305000	Weak transcription	Primary monocytes fromperipheralblood	blood
10	chr5:112300200-112305000	Weak transcription	Hela-S3	cervix
11	chr5:112300200-112305000	Weak transcription	HUVEC	blood vessel
12	chr5:112300200-112305000	Weak transcription	Monocytes-CD14+_RO01746	blood
13	chr5:112300200-112311400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
14	chr5:112300400-112304600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
15	chr5:112300400-112305200	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
16	chr5:112302000-112306200	Enhancers	Placenta	Placenta
17	chr5:112302600-112305200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
18	chr5:112303600-112305600	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
19	chr5:112303600-112305800	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
20	chr5:112303800-112304600	Flanking Active TSS	A549	lung
21	chr5:112303800-112304600	Flanking Active TSS	HepG2	liver
22	chr5:112303800-112305200	Enhancers	K562	blood
23	chr5:112303800-112305800	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
24	chr5:112304000-112304800	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
25	chr5:112304200-112304400	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
26	chr5:112304200-112305400	Enhancers	GM12878-XiMat	blood
27	chr5:112304200-112305600	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
28	chr5:112304200-112305600	Enhancers	HUES6 Cell Line	embryonic stem cell
29	chr5:112304200-112305600	Enhancers	iPS-18 Cell Line	embryonic stem cell
30	chr5:112304200-112306000	Enhancers	H1 Cell Line	embryonic stem cell

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