Variant report

Variant	rs1172959
Chromosome Location	chr10:97889949-97889950
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:442)
CpG islands
(count:0)
Chromatin interactive
region (count:25)
LncRNA
region (count:1)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

(count:442 , 50 per page) page: 1 2 3 4 5 6 7 ... 9

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	POLR2A	chr10:97888981-97890942	K562	blood:	n/a	n/a
2	GTF2B	chr10:97889288-97890557	K562	blood:	n/a	n/a
3	REST	chr10:97889061-97890867	H1-neurons	neurons:	n/a	chr10:97890229-97890247
4	MAX	chr10:97889105-97890572	GM12878	blood:	n/a	n/a
5	POLR2A	chr10:97889127-97890643	GM19099	blood:	n/a	n/a
6	BCL3	chr10:97889125-97890719	A549	lung:	n/a	chr10:97889764-97889773 chr10:97890234-97890247
7	RUNX3	chr10:97889250-97890749	GM12878	blood:	n/a	chr10:97890359-97890374 chr10:97890324-97890341
8	TAF1	chr10:97889362-97890589	GM12891	blood:	n/a	n/a
9	BCLAF1	chr10:97889309-97890659	GM12878	blood:	n/a	chr10:97889764-97889773 chr10:97890234-97890247
10	CTCF	chr10:97889840-97889990	HRE	kidney:	n/a	n/a
11	MXI1	chr10:97889353-97890625	HepG2	liver:	n/a	n/a
12	POLR2A	chr10:97889475-97890647	SK-N-MC	brain:	n/a	n/a
13	JUN	chr10:97889585-97890463	K562	blood:	n/a	n/a
14	RCOR1	chr10:97889560-97890659	GM12878	blood:	n/a	n/a
15	POLR2A	chr10:97889108-97890896	PANC-1	pancreas:	n/a	n/a
16	POU2F2	chr10:97889429-97890130	GM12878	blood:	n/a	n/a
17	MYC	chr10:97889185-97890620	K562	blood:	n/a	n/a
18	POLR2A	chr10:97889289-97891066	HUVEC	blood vessel:	n/a	n/a
19	CREB1	chr10:97889283-97890675	H1-hESC	embryonic stem cell:	n/a	n/a
20	BHLHE40	chr10:97889262-97890001	HepG2	liver:	n/a	n/a
21	ETS1	chr10:97889576-97889976	K562	blood:	n/a	n/a
22	POLR2A	chr10:97889041-97890725	GM12891	blood:	n/a	n/a
23	PML	chr10:97889483-97890512	MCF-7	breast:	n/a	n/a
24	POLR2A	chr10:97889109-97890719	K562	blood:	n/a	n/a
25	MYC	chr10:97889385-97890644	K562	blood:	n/a	n/a
26	YY1	chr10:97889284-97890641	GM12892	blood:	n/a	n/a
27	MYC	chr10:97888951-97890857	A549	lung:	n/a	n/a
28	POLR2A	chr10:97889290-97890632	H1-neurons	neurons:	n/a	n/a
29	YY1	chr10:97889095-97890678	A549	lung:	n/a	n/a
30	BHLHE40	chr10:97889467-97890556	K562	blood:	n/a	n/a
31	TCF12	chr10:97889097-97890806	A549	lung:	n/a	n/a
32	GABPA	chr10:97889196-97890612	MCF-7	breast:	n/a	chr10:97890299-97890308 chr10:97890046-97890053
33	GATA1	chr10:97889493-97890693	PBDE	blood:	n/a	n/a
34	CREB1	chr10:97889259-97890591	A549	lung:	n/a	n/a
35	EP300	chr10:97889289-97890060	A549	lung:	n/a	n/a
36	YY1	chr10:97889414-97890664	SK-N-SH	brain:	n/a	n/a
37	MYC	chr10:97889618-97890053	HepG2	liver:	n/a	n/a
38	GATA3	chr10:97889418-97890090	MCF-7	breast:	n/a	n/a
39	TEAD4	chr10:97889202-97890376	HepG2	liver:	n/a	n/a
40	MYBL2	chr10:97888994-97890749	HepG2	liver:	n/a	n/a
41	MAX	chr10:97889286-97890691	MCF-7	breast:	n/a	n/a
42	YY1	chr10:97889067-97890636	H1-hESC	embryonic stem cell:	n/a	n/a
43	RCOR1	chr10:97889367-97890614	K562	blood:	n/a	n/a
44	SMC3	chr10:97889392-97890300	HepG2	liver:	n/a	n/a
45	TAF1	chr10:97889181-97890621	K562	blood:	n/a	n/a
46	MXI1	chr10:97889484-97890620	GM12878	blood:	n/a	n/a
47	RCOR1	chr10:97889098-97890031	HepG2	liver:	n/a	n/a
48	POLR2A	chr10:97889507-97890542	Hela-S3	cervix:	n/a	n/a
49	ELF1	chr10:97889313-97890409	SK-N-SH	brain:	n/a	chr10:97890154-97890165 chr10:97890155-97890164 chr10:97890154-97890165
50	ATF3	chr10:97889416-97890308	A549	lung:	n/a	chr10:97890297-97890306

No data

(count:25 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr10:97888142..97890161-chr10:97948497..97950292,2	MCF-7	breast:
2	chr10:71929764..71930514-chr10:97889826..97890652,2	NB4	blood:
3	chr10:97849360..97850496-chr10:97889363..97891052,12	MCF-7	breast:
4	chr10:97802832..97806993-chr10:97887536..97891956,8	MCF-7	breast:
5	chr10:97849924..97850474-chr10:97889791..97890684,2	MCF-7	breast:
6	chr10:97802278..97809202-chr10:97887978..97892462,12	MCF-7	breast:
7	chr10:97798897..97809644-chr10:97883865..97893202,24	K562	blood:
8	chr10:97838555..97859010-chr10:97880529..97894933,78	K562	blood:
9	chr10:97889581..97890385-chr15:72766087..72766662,2	NB4	blood:
10	chr10:97847401..97854280-chr10:97883753..97891876,34	MCF-7	breast:
11	chr10:97821732..97826384-chr10:97888833..97893125,8	K562	blood:
12	chr10:97889636..97890289-chr19:54372117..54372673,2	Hela-S3	cervix:
13	chr10:97889799..97890340-chr6:86353223..86353989,2	HCT-116	colon:
14	chr10:97823412..97829271-chr10:97885375..97892097,8	K562	blood:
15	chr10:97847100..97852766-chr10:97886402..97893071,22	MCF-7	breast:
16	chr10:97821145..97824482-chr10:97888850..97891356,3	MCF-7	breast:
17	chr10:97889763..97892237-chr10:97913785..97916695,2	K562	blood:
18	chr10:97889876..97892137-chr10:97912175..97915299,3	MCF-7	breast:
19	chr10:97849403..97850506-chr10:97889252..97890588,8	NB4	blood:
20	chr10:97845791..97859010-chr10:97880529..97895862,76	K562	blood:
21	chr10:97849316..97850266-chr10:97888828..97890559,6	MCF-7	breast:
22	chr10:97889731..97891560-chr10:97911556..97915285,3	K562	blood:
23	chr10:97849709..97850473-chr10:97889478..97890662,4	HCT-116	colon:
24	chr10:97798897..97807548-chr10:97886918..97893342,17	K562	blood:
25	chr10:97889331..97890326-chr13:103498147..103498725,2	NB4	blood:

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

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-BLNK-4	chr10:97888812-97890249	NONHSAT015794

No data

Variant related genes	Relation type
ZNF518A	TF binding region
ENSG00000107443	Chromatin interaction
ENSG00000135316	Chromatin interaction
ENSG00000266407	Chromatin interaction
ENSG00000261423	Chromatin interaction
ENSG00000228323	Chromatin interaction
ENSG00000134899	Chromatin interaction
ENSG00000229417	Chromatin interaction
ENSG00000079332	Chromatin interaction
ENSG00000179820	Chromatin interaction
ENSG00000226688	Chromatin interaction
ENSG00000177853	Chromatin interaction

Extended variants
information (count: 16 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:16)

rs_ID	r²[population]
rs11188577	0.87[AFR][1000 genomes]
rs1172938	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1172939	1.00[AMR][1000 genomes]
rs1172941	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1172947	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1172950	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1172951	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1172957	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12260724	0.90[AFR][1000 genomes]
rs2446024	0.83[AFR][1000 genomes]
rs6584051	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6584054	0.83[AFR][1000 genomes]
rs7085423	0.88[AFR][1000 genomes]
rs7086164	0.89[AFR][1000 genomes]
rs7094773	1.00[AMR][1000 genomes]
rs7099008	0.82[AFR][1000 genomes]

No data

Chromatin state (count:127 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:97889000-97890400	Active TSS	Duodenum Smooth Muscle	Duodenum
2	chr10:97889000-97890600	Active TSS	Brain Anterior Caudate	brain
3	chr10:97889000-97890600	Bivalent/Poised TSS	Brain Germinal Matrix	brain
4	chr10:97889000-97890600	Active TSS	Brain Substantia Nigra	brain
5	chr10:97889000-97890800	Active TSS	Brain Inferior Temporal Lobe	brain
6	chr10:97889000-97890800	Active TSS	Brain Dorsolateral Prefrontal Cortex	brain
7	chr10:97889000-97890800	Active TSS	Pancreatic Islets	Pancreatic Islet
8	chr10:97889000-97890800	Active TSS	Rectal Mucosa Donor 29	rectum
9	chr10:97889000-97891000	Active TSS	Psoas Muscle	Psoas
10	chr10:97889000-97891000	Active TSS	Right Ventricle	heart
11	chr10:97889000-97891200	Active TSS	iPS-15b Cell Line	embryonic stem cell
12	chr10:97889000-97891200	Active TSS	iPS-18 Cell Line	embryonic stem cell
13	chr10:97889000-97891400	Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
14	chr10:97889000-97891600	Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
15	chr10:97889000-97892200	Active TSS	ES-I3 Cell Line	embryonic stem cell
16	chr10:97889000-97892200	Active TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
17	chr10:97889200-97890400	Active TSS	Primary hematopoietic stem cells	blood
18	chr10:97889200-97890400	Active TSS	Rectal Smooth Muscle	rectum
19	chr10:97889200-97890600	Active TSS	Primary T regulatory cells fromperipheralblood	blood
20	chr10:97889200-97890600	Active TSS	Fetal Kidney	kidney
21	chr10:97889200-97890600	Active TSS	Lung	lung
22	chr10:97889200-97890600	Active TSS	NH-A	brain
23	chr10:97889200-97890800	Active TSS	Muscle Satellite Cultured Cells	--
24	chr10:97889200-97890800	Active TSS	Brain Hippocampus Middle	brain
25	chr10:97889200-97890800	Active TSS	Fetal Lung	lung
26	chr10:97889200-97890800	Active TSS	Left Ventricle	heart
27	chr10:97889200-97890800	Active TSS	Ovary	ovary
28	chr10:97889200-97890800	Active TSS	Pancreas	Pancrea
29	chr10:97889200-97890800	Active TSS	Sigmoid Colon	Sigmoid Colon
30	chr10:97889200-97890800	Active TSS	Small Intestine	intestine
31	chr10:97889200-97891000	Active TSS	H9 Cell Line	embryonic stem cell
32	chr10:97889200-97891000	Active TSS	Aorta	Aorta
33	chr10:97889200-97891000	Active TSS	Colonic Mucosa	Colon
34	chr10:97889200-97891000	Active TSS	Fetal Brain Female	brain
35	chr10:97889200-97891200	Active TSS	HSMMtube	muscle
36	chr10:97889200-97891400	Active TSS	ES-WA7 Cell Line	embryonic stem cell
37	chr10:97889200-97891400	Active TSS	Foreskin Melanocyte Primary Cells skin01	Skin
38	chr10:97889200-97891400	Active TSS	NHLF	lung
39	chr10:97889200-97891600	Active TSS	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
40	chr10:97889200-97891600	Active TSS	HUES64 Cell Line	embryonic stem cell
41	chr10:97889200-97891600	Active TSS	Stomach Smooth Muscle	stomach
42	chr10:97889200-97891800	Active TSS	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
43	chr10:97889200-97892000	Active TSS	HUES6 Cell Line	embryonic stem cell
44	chr10:97889400-97890400	Active TSS	Primary B cells from cord blood	blood
45	chr10:97889400-97890400	Active TSS	Skeletal Muscle Male	skeletal muscle
46	chr10:97889400-97890400	Active TSS	Spleen	Spleen
47	chr10:97889400-97890600	Active TSS	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
48	chr10:97889400-97890600	Active TSS	Gastric	stomach
49	chr10:97889400-97890600	Transcr. at gene 5' and 3'	Right Atrium	heart
50	chr10:97889400-97890600	Bivalent/Poised TSS	HepG2	liver

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