Variant report

Variant	rs9358788
Chromosome Location	chr6:24670830-24670831
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:5)
CpG islands
(count:0)
Chromatin interactive
region (count:4)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

(count:5 , 50 per page) page: 1

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	CBX3	chr6:24670611-24671256	K562	blood:	n/a	n/a
2	CBX3	chr6:24670708-24671290	K562	blood:	n/a	n/a
3	KAP1	chr6:24670279-24671205	K562	blood:	n/a	n/a
4	SETDB1	chr6:24670569-24671268	U2OS	brain:	n/a	n/a
5	STAT3	chr6:24670808-24670847	MCF10A-Er-Src	breast:	n/a	n/a

No data

(count:4 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr6:24668894..24670488-chr6:24670506..24672451,2	K562	blood:
2	chr6:24660920..24672880-chr6:24713381..24723000,42	K562	blood:
3	chr6:24670469..24672258-chr6:24720184..24721955,2	MCF-7	breast:
4	chr6:24670678..24672473-chr6:24716223..24718706,2	K562	blood:

No data

Variant related genes	Relation type
TDP2	TF binding region
ENSG00000112308	Chromatin interaction

Extended variants
information (count: 20 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:18)

rs_ID	r²[population]
rs10946716	0.89[AFR][1000 genomes];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12194181	0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12200354	0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12205123	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12214093	0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs3212231	0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6915781	0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6916159	0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6916165	0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6916608	0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6928074	0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6936786	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6937517	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9358789	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9358790	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9393577	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9393578	0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9393579	0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[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	esv3508002	chr6:24618580-24732946	Enhancers Strong transcription Genic enhancers Transcr. at gene 5' and 3' Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	82 gene(s)	inside rSNPs	diseases
2	esv3508003	chr6:24618580-24732946	Weak transcription Genic enhancers Strong transcription Enhancers Active TSS Transcr. at gene 5' and 3' Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	82 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:28 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:24668000-24676000	ZNF genes & repeats	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
2	chr6:24668200-24674400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
3	chr6:24668200-24699800	Weak transcription	Brain Substantia Nigra	brain
4	chr6:24668400-24671800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
5	chr6:24668600-24671000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
6	chr6:24668800-24672400	ZNF genes & repeats	iPS-20b Cell Line	embryonic stem cell
7	chr6:24668800-24691800	Weak transcription	Psoas Muscle	Psoas
8	chr6:24669000-24672800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
9	chr6:24669000-24673000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
10	chr6:24669000-24675800	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
11	chr6:24669000-24681800	Weak transcription	Sigmoid Colon	Sigmoid Colon
12	chr6:24669000-24686400	Weak transcription	Rectal Mucosa Donor 31	rectum
13	chr6:24669000-24690400	Weak transcription	Gastric	stomach
14	chr6:24669000-24693000	Weak transcription	Primary T cells from cord blood	blood
15	chr6:24669000-24701200	Weak transcription	Duodenum Smooth Muscle	Duodenum
16	chr6:24669200-24675800	ZNF genes & repeats	HUES64 Cell Line	embryonic stem cell
17	chr6:24669200-24686200	Weak transcription	Primary T helper naive cells from peripheral blood	blood
18	chr6:24669200-24690800	Weak transcription	Skeletal Muscle Female	skeletal muscle
19	chr6:24669400-24671200	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
20	chr6:24669400-24687600	Weak transcription	Left Ventricle	heart
21	chr6:24669400-24701600	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
22	chr6:24669600-24671000	Weak transcription	Rectal Mucosa Donor 29	rectum
23	chr6:24670000-24671200	Enhancers	Liver	Liver
24	chr6:24670200-24671400	ZNF genes & repeats	H1 Cell Line	embryonic stem cell
25	chr6:24670400-24671400	ZNF genes & repeats	iPS-18 Cell Line	embryonic stem cell
26	chr6:24670600-24671000	ZNF genes & repeats	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
27	chr6:24670600-24672200	ZNF genes & repeats	K562	blood
28	chr6:24670800-24672200	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast

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