Variant report

Variant	rs9658056
Chromosome Location	chr6:35309560-35309561
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	SMC3	chr6:35309453-35312128	SK-N-SH	brain:	n/a	chr6:35310765-35310772 chr6:35310162-35310176
2	CEBPB	chr6:35309026-35310530	HCT-116	colon:	n/a	chr6:35309428-35309439
3	RAD21	chr6:35309295-35310705	HCT-116	colon:	n/a	chr6:35310161-35310180 chr6:35310165-35310174 chr6:35310164-35310177 chr6:35310175-35310189
4	POLR2A	chr6:35309406-35309723	HCT-116	colon:	n/a	n/a
5	CEBPB	chr6:35309304-35309990	ECC-1	luminal epithelium:	n/a	chr6:35309428-35309439
6	CEBPB	chr6:35308881-35310633	HCT-116	colon:	n/a	chr6:35309428-35309439
7	CEBPB	chr6:35309269-35309613	Hela-S3	cervix:	n/a	chr6:35309428-35309439
8	CTCF	chr6:35309440-35309590	K562	blood:	n/a	n/a
9	CEBPB	chr6:35309165-35310274	MCF-7	breast:	n/a	chr6:35309428-35309439
10	RAD21	chr6:35309321-35310711	HCT-116	colon:	n/a	chr6:35310161-35310180 chr6:35310165-35310174 chr6:35310164-35310177 chr6:35310175-35310189
11	CTCF	chr6:35309425-35310601	HCT-116	colon:	n/a	chr6:35310163-35310176 chr6:35310165-35310175 chr6:35310160-35310178
12	CEBPB	chr6:35309261-35309620	A549	lung:	n/a	chr6:35309428-35309439
13	CEBPB	chr6:35309036-35309805	K562	blood:	n/a	chr6:35309428-35309439
14	CEBPB	chr6:35309245-35309589	K562	blood:	n/a	chr6:35309428-35309439
15	CEBPB	chr6:35309245-35309627	H1-hESC	embryonic stem cell:	n/a	chr6:35309428-35309439
16	RAD21	chr6:35309515-35312553	SK-N-SH	brain:	n/a	chr6:35310161-35310180 chr6:35310165-35310174 chr6:35311808-35311822 chr6:35310164-35310177 chr6:35310175-35310189
17	CEBPB	chr6:35309134-35310543	ECC-1	luminal epithelium:	n/a	chr6:35309428-35309439
18	CEBPB	chr6:35309267-35309637	A549	lung:	n/a	chr6:35309428-35309439
19	ZNF143	chr6:35309521-35309621	K562	blood:	n/a	n/a
20	ZNF384	chr6:35309263-35310365	K562	blood:	n/a	n/a
21	CEBPB	chr6:35309283-35310400	MCF-7	breast:	n/a	chr6:35309428-35309439
22	CEBPB	chr6:35309246-35310288	HepG2	liver:	n/a	chr6:35309428-35309439
23	CEBPB	chr6:35309298-35309698	A549	lung:	n/a	chr6:35309428-35309439
24	CEBPD	chr6:35309307-35309692	K562	blood:	n/a	chr6:35309429-35309440
25	CEBPB	chr6:35309254-35309643	IMR90	lung:	n/a	chr6:35309428-35309439
26	CEBPB	chr6:35309080-35310252	K562	blood:	n/a	chr6:35309428-35309439

No.	Distal block	Cell Line	Cell type
1	chr6:35308697..35314051-chr6:35417510..35421585,8	K562	blood:
2	chr6:35308405..35313609-chr6:35434054..35440248,12	K562	blood:
3	chr6:35308378..35313609-chr6:35433550..35439145,12	K562	blood:
4	chr6:35225346..35227530-chr6:35309507..35311733,2	MCF-7	breast:
5	chr6:35309118..35313462-chr6:35418133..35422102,7	MCF-7	breast:
6	chr6:35294980..35297541-chr6:35307436..35310108,3	K562	blood:
7	chr6:35307588..35310210-chr6:35369138..35372365,3	K562	blood:
8	chr6:35309215..35314259-chr6:35432456..35439068,10	MCF-7	breast:
9	chr6:35261055..35266113-chr6:35308586..35312212,6	K562	blood:

Variant related genes	Relation type
PPARD	TF binding region
ENSG00000023892	Chromatin interaction
ENSG00000198755	Chromatin interaction
ENSG00000112039	Chromatin interaction
ENSG00000065029	Chromatin interaction

Extended variants
information (count: 22 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:20)

rs_ID	r²[population]
rs11962571	1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11966959	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2395620	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4713842	0.88[YRI][hapmap]
rs4713843	0.88[YRI][hapmap]
rs6902870	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes]
rs6903096	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6913026	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs6937483	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs6940708	1.00[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs6940722	1.00[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs707969	1.00[YRI][hapmap];0.86[AFR][1000 genomes]
rs7745039	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7754530	1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7757196	0.80[YRI][hapmap]
rs7762983	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7766007	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7768741	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9658060	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9658136	0.88[YRI][hapmap]

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	nsv830641	chr6:35282534-35440603	Enhancers Weak transcription Flanking Active TSS Genic enhancers Strong transcription Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	57 gene(s)	inside rSNPs	diseases
2	nsv602907	chr6:35285720-35312267	Strong transcription Active TSS Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Weak transcription Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:22 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:35286600-35310000	Weak transcription	Right Atrium	heart
2	chr6:35291600-35309600	Weak transcription	Dnd41	blood
3	chr6:35293200-35309600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
4	chr6:35300600-35309800	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
5	chr6:35300800-35309600	Weak transcription	Primary T helper cells PMA-I stimulated	--
6	chr6:35300800-35309800	Weak transcription	Primary T helper naive cells from peripheral blood	blood
7	chr6:35305600-35309600	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
8	chr6:35307400-35309800	Weak transcription	Primary neutrophils fromperipheralblood	blood
9	chr6:35308800-35310000	Enhancers	HepG2	liver
10	chr6:35308800-35310200	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
11	chr6:35308800-35310200	Enhancers	Placenta	Placenta
12	chr6:35309000-35309800	Enhancers	K562	blood
13	chr6:35309200-35309600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
14	chr6:35309200-35309800	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
15	chr6:35309200-35309800	Enhancers	Skeletal Muscle Female	skeletal muscle
16	chr6:35309200-35309800	Enhancers	NHEK	skin
17	chr6:35309200-35310000	Active TSS	Foreskin Fibroblast Primary Cells skin02	Skin
18	chr6:35309400-35309800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
19	chr6:35309400-35310000	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
20	chr6:35309400-35310000	Enhancers	Fetal Thymus	thymus
21	chr6:35309400-35310200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
22	chr6:35309400-35310200	Enhancers	Placenta Amnion	Placenta Amnion

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