Variant report

Variant	rs10461085
Chromosome Location	chr4:30717744-30717745
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:54)
CpG islands
(count:0)
Chromatin interactive
region (count:7)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

(count:54 , 50 per page) page: 1 2

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	CTCF	chr4:30717464-30718276	SK-N-SH	brain:	n/a	n/a
2	MYC	chr4:30717707-30718042	NB4	blood:	n/a	n/a
3	CTCF	chr4:30717740-30717890	HFF-Myc	foreskin:	n/a	n/a
4	STAT3	chr4:30717744-30718038	MCF10A-Er-Src	breast:	n/a	chr4:30717916-30717927
5	RAD21	chr4:30717656-30718141	A549	lung:	n/a	n/a
6	RAD21	chr4:30717648-30718108	H1-hESC	embryonic stem cell:	n/a	n/a
7	RAD21	chr4:30717624-30718172	MCF-7	breast:	n/a	n/a
8	RAD21	chr4:30717627-30718306	ECC-1	luminal epithelium:	n/a	n/a
9	RAD21	chr4:30717470-30718789	SK-N-SH	brain:	n/a	n/a
10	RAD21	chr4:30717680-30718026	SK-N-SH_RA	brain:	n/a	n/a
11	RAD21	chr4:30717296-30719272	HCT-116	colon:	n/a	n/a
12	CTCF	chr4:30717653-30717992	K562	blood:	n/a	n/a
13	CTCF	chr4:30717727-30718004	A549	lung:	n/a	n/a
14	RAD21	chr4:30717614-30718143	IMR90	lung:	n/a	n/a
15	CTCF	chr4:30717740-30717890	HCT-116	colon:	n/a	n/a
16	RAD21	chr4:30717665-30718190	H1-hESC	embryonic stem cell:	n/a	n/a
17	CTCF	chr4:30717720-30717870	GM12868	blood:	n/a	n/a
18	RAD21	chr4:30717679-30718117	H1-hESC	embryonic stem cell:	n/a	n/a
19	RAD21	chr4:30717577-30718161	MCF-7	breast:	n/a	n/a
20	SMC3	chr4:30717658-30718115	Hela-S3	cervix:	n/a	n/a
21	CTCF	chr4:30717720-30717870	HFF-Myc	foreskin:	n/a	n/a
22	RAD21	chr4:30717697-30718020	HepG2	liver:	n/a	n/a
23	TCF7L2	chr4:30717690-30718211	HEK293	kidney:	n/a	chr4:30717809-30717823 chr4:30717811-30717820
24	CTCF	chr4:30717722-30718039	H1-hESC	embryonic stem cell:	n/a	n/a
25	CTCF	chr4:30717724-30718018	HUVEC	blood vessel:	n/a	n/a
26	CTCF	chr4:30717740-30717890	GM12874	blood:	n/a	n/a
27	CTCF	chr4:30717740-30717890	GM12866	blood:	n/a	n/a
28	CTCF	chr4:30717740-30717890	HEEpiC	esophagus:	n/a	n/a
29	TCF7L2	chr4:30717689-30718004	PANC-1	pancreas:	n/a	chr4:30717809-30717823 chr4:30717811-30717820
30	CTCF	chr4:30717645-30718108	MCF-7	breast:	n/a	n/a
31	CTCF	chr4:30717737-30718026	HepG2	liver:	n/a	n/a
32	CTCF	chr4:30717594-30718193	HCT-116	colon:	n/a	n/a
33	RAD21	chr4:30717696-30718020	GM12878	blood:	n/a	n/a
34	MYC	chr4:30717726-30718029	MCF10A-Er-Src	breast:	n/a	n/a
35	CTCF	chr4:30717720-30717870	NHEK	skin:	n/a	n/a
36	CTCF	chr4:30717653-30718081	GM12878	blood:	n/a	n/a
37	FOS	chr4:30717739-30718017	MCF10A-Er-Src	breast:	n/a	n/a
38	RAD21	chr4:30717692-30718005	GM12878	blood:	n/a	n/a
39	RAD21	chr4:30717724-30718021	HepG2	liver:	n/a	n/a
40	CTCF	chr4:30717660-30717810	HAc	cerebellar:	n/a	n/a
41	MAX	chr4:30717739-30718154	NB4	blood:	n/a	n/a
42	RAD21	chr4:30717695-30718081	GM12878	blood:	n/a	n/a
43	CTCF	chr4:30717720-30717870	GM12869	blood:	n/a	n/a
44	RAD21	chr4:30717551-30718244	HCT-116	colon:	n/a	n/a
45	SMC3	chr4:30717701-30718027	GM12878	blood:	n/a	n/a
46	RAD21	chr4:30717573-30718245	ECC-1	luminal epithelium:	n/a	n/a
47	CTCF	chr4:30717737-30717999	Medullo	brain:	n/a	n/a
48	ZNF143	chr4:30717707-30718039	GM12878	blood:	n/a	n/a
49	RAD21	chr4:30717663-30718111	A549	lung:	n/a	n/a
50	RAD21	chr4:30717490-30719616	Hela-S3	cervix:	n/a	n/a

No data

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

No.	Distal block	Cell Line	Cell type
1	chr4:30717244..30718793-chr4:31044455..31046868,2	MCF-7	breast:
2	chr17:59887291..59887834-chr4:30717716..30718321,2	MCF-7	breast:
3	chr4:30717605..30718466-chr4:31676032..31676616,2	MCF-7	breast:
4	chr4:30717567..30718089-chr4:30862406..30862959,2	MCF-7	breast:
5	chr4:30713001..30714896-chr4:30716377..30718152,2	MCF-7	breast:
6	chr4:30717663..30718271-chr4:31675745..31677067,3	MCF-7	breast:
7	chr4:30715895..30717816-chr4:30719867..30722141,2	MCF-7	breast:

No data

Variant related genes	Relation type
PCDH7	TF binding region
ENSG00000169851	Chromatin interaction

Extended variants
information (count: 9 )
Associated
traits (count: 5 )

rSNPs within LD-proxies of this variant (count:9)

rs_ID	r²[population]
rs10033947	1.00[CEU][hapmap]
rs11724560	0.81[CHB][hapmap]
rs11937211	0.81[CHB][hapmap]
rs16884098	1.00[CEU][hapmap];1.00[AFR][1000 genomes]
rs16884199	0.90[CHB][hapmap]
rs6817713	0.81[CHB][hapmap]
rs6817736	0.81[CHB][hapmap]
rs6833871	0.81[CHB][hapmap]
rs7439866	0.81[CHB][hapmap]

mRNA abundance (count:5)

SNP	Gene	Cis/trans	Tissue	Source
rs10461085	IFI44L	trans	brain	seeQTL
rs10461085	MX1	trans	brain	seeQTL
rs10461085	STAT1	trans	brain	seeQTL
rs10461085	IFIT3	trans	brain	seeQTL
rs10461085	IRF9	trans	brain	seeQTL

Chromatin state (count:19 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:30713000-30718400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
2	chr4:30713200-30717800	Weak transcription	Aorta	Aorta
3	chr4:30714800-30717800	Weak transcription	iPS-20b Cell Line	embryonic stem cell
4	chr4:30716200-30717800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
5	chr4:30716400-30717800	Weak transcription	HUES6 Cell Line	embryonic stem cell
6	chr4:30716400-30718200	Weak transcription	Liver	Liver
7	chr4:30717200-30717800	Enhancers	HUES64 Cell Line	embryonic stem cell
8	chr4:30717400-30717800	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
9	chr4:30717400-30718800	Enhancers	Primary T helper cells PMA-I stimulated	--
10	chr4:30717600-30717800	Enhancers	HUES48 Cell Line	embryonic stem cell
11	chr4:30717600-30717800	Enhancers	iPS-18 Cell Line	embryonic stem cell
12	chr4:30717600-30717800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
13	chr4:30717600-30717800	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
14	chr4:30717600-30717800	Enhancers	Fetal Kidney	kidney
15	chr4:30717600-30717800	Enhancers	GM12878-XiMat	blood
16	chr4:30717600-30717800	Enhancers	Hela-S3	cervix
17	chr4:30717600-30717800	Enhancers	HUVEC	blood vessel
18	chr4:30717600-30718000	Enhancers	Fetal Lung	lung
19	chr4:30717600-30724000	Active TSS	H9 Derived Neuron Cultured Cells	ES cell derived

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