Variant report

Variant	rs11189107
Chromosome Location	chr10:99052819-99052820
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	GABPA	chr10:99051745-99052832	MCF-7	breast:	n/a	n/a
2	HA-E2F1	chr10:99051668-99052820	MCF-7	breast:	n/a	chr10:99052048-99052055 chr10:99052044-99052055
3	BACH1	chr10:99052348-99052837	K562	blood:	n/a	chr10:99052752-99052766
4	MAZ	chr10:99051424-99052864	IMR90	lung:	n/a	chr10:99052755-99052764 chr10:99052578-99052588 chr10:99052423-99052433
5	MAFK	chr10:99051896-99052898	K562	blood:	n/a	chr10:99052758-99052769 chr10:99052384-99052399 chr10:99052756-99052765
6	NFYB	chr10:99051702-99052869	Hela-S3	cervix:	n/a	chr10:99052470-99052485 chr10:99052438-99052451 chr10:99052438-99052453
7	FOXM1	chr10:99052063-99052867	GM12878	blood:	n/a	n/a
8	NFYB	chr10:99051826-99052939	GM12878	blood:	n/a	chr10:99052470-99052485 chr10:99052438-99052451 chr10:99052438-99052453
9	SP1	chr10:99051675-99052942	A549	lung:	n/a	chr10:99052584-99052593 chr10:99052420-99052431 chr10:99052577-99052589 chr10:99052584-99052593 chr10:99052421-99052430 chr10:99052583-99052592 chr10:99052422-99052431 chr10:99052421-99052435 chr10:99052577-99052589 chr10:99052420-99052432 chr10:99052599-99052608 chr10:99052420-99052432
10	MAFF	chr10:99052351-99052924	K562	blood:	n/a	chr10:99052383-99052401
11	TCF12	chr10:99051629-99052874	ECC-1	luminal epithelium:	n/a	n/a
12	JUND	chr10:99051844-99052868	Hela-S3	cervix:	n/a	chr10:99052755-99052764 chr10:99052754-99052763 chr10:99052753-99052764
13	MAFK	chr10:99051798-99052857	IMR90	lung:	n/a	chr10:99052758-99052769 chr10:99052384-99052399 chr10:99052756-99052765
14	ZNF143	chr10:99051800-99052822	H1-hESC	embryonic stem cell:	n/a	chr10:99052612-99052630 chr10:99052621-99052630 chr10:99052619-99052628
15	ZNF143	chr10:99052123-99052823	K562	blood:	n/a	chr10:99052612-99052630 chr10:99052621-99052630 chr10:99052619-99052628
16	CREB1	chr10:99052122-99052856	ECC-1	luminal epithelium:	n/a	n/a
17	MAFK	chr10:99051863-99052824	HepG2	liver:	n/a	chr10:99052758-99052769 chr10:99052384-99052399 chr10:99052756-99052765
18	SP1	chr10:99051592-99052910	HCT-116	colon:	n/a	chr10:99052584-99052593 chr10:99052420-99052431 chr10:99052577-99052589 chr10:99052584-99052593 chr10:99052421-99052430 chr10:99052583-99052592 chr10:99052422-99052431 chr10:99052421-99052435 chr10:99052577-99052589 chr10:99052420-99052432 chr10:99052599-99052608 chr10:99052420-99052432
19	ZNF384	chr10:99052525-99052859	K562	blood:	n/a	n/a
20	MYC	chr10:99052741-99053040	H1-hESC	embryonic stem cell:	n/a	chr10:99052755-99052764
21	SP1	chr10:99051645-99052865	A549	lung:	n/a	chr10:99052584-99052593 chr10:99052420-99052431 chr10:99052577-99052589 chr10:99052584-99052593 chr10:99052421-99052430 chr10:99052583-99052592 chr10:99052422-99052431 chr10:99052421-99052435 chr10:99052577-99052589 chr10:99052420-99052432 chr10:99052599-99052608 chr10:99052420-99052432
22	GATA1	chr10:99051894-99053040	PBDE	blood:	n/a	chr10:99052142-99052150
23	EGR1	chr10:99051679-99052851	HCT-116	colon:	n/a	chr10:99052422-99052437 chr10:99052423-99052433 chr10:99052418-99052440 chr10:99052607-99052631 chr10:99052423-99052436 chr10:99052423-99052436 chr10:99051937-99051961 chr10:99052423-99052436
24	ZC3H11A	chr10:99052633-99053068	K562	blood:	n/a	n/a
25	MYBL2	chr10:99051750-99052901	HepG2	liver:	n/a	n/a
26	ARID3A	chr10:99051614-99052821	HepG2	liver:	n/a	n/a
27	YY1	chr10:99051772-99052820	ECC-1	luminal epithelium:	n/a	chr10:99052089-99052103
28	GABPA	chr10:99051650-99052830	MCF-7	breast:	n/a	n/a
29	SP1	chr10:99051555-99052990	HCT-116	colon:	n/a	chr10:99052584-99052593 chr10:99052420-99052431 chr10:99052577-99052589 chr10:99052584-99052593 chr10:99052421-99052430 chr10:99052583-99052592 chr10:99052422-99052431 chr10:99052421-99052435 chr10:99052577-99052589 chr10:99052420-99052432 chr10:99052599-99052608 chr10:99052420-99052432
30	JUND	chr10:99051622-99052866	K562	blood:	n/a	chr10:99052755-99052764 chr10:99052754-99052763 chr10:99052753-99052764
31	YY1	chr10:99051600-99052820	ECC-1	luminal epithelium:	n/a	chr10:99052089-99052103
32	HCFC1	chr10:99051355-99053073	Hela-S3	cervix:	n/a	n/a
33	BCLAF1	chr10:99052363-99052864	GM12878	blood:	n/a	n/a
34	NFIC	chr10:99051543-99052890	ECC-1	luminal epithelium:	n/a	chr10:99052143-99052160 chr10:99052143-99052159
35	MYBL2	chr10:99051605-99052850	HepG2	liver:	n/a	n/a
36	ETS1	chr10:99051791-99052855	A549	lung:	n/a	chr10:99052016-99052023 chr10:99052063-99052076 chr10:99052618-99052631 chr10:99052620-99052627
37	E2F4	chr10:99051608-99053567	MCF10A-Er-Src	breast:	n/a	chr10:99052566-99052577 chr10:99052584-99052595 chr10:99052048-99052055 chr10:99052044-99052055
38	SIX5	chr10:99052405-99052827	H1-hESC	embryonic stem cell:	n/a	chr10:99052619-99052628 chr10:99052621-99052630 chr10:99052618-99052632
39	IRF1	chr10:99051835-99052826	K562	blood:	n/a	chr10:99052418-99052432 chr10:99052627-99052641 chr10:99052582-99052596
40	SP1	chr10:99052019-99052831	H1-hESC	embryonic stem cell:	n/a	chr10:99052584-99052593 chr10:99052420-99052431 chr10:99052577-99052589 chr10:99052584-99052593 chr10:99052421-99052430 chr10:99052583-99052592 chr10:99052422-99052431 chr10:99052421-99052435 chr10:99052577-99052589 chr10:99052420-99052432 chr10:99052599-99052608 chr10:99052420-99052432
41	REST	chr10:99051654-99052849	A549	lung:	n/a	chr10:99051973-99051980 chr10:99052098-99052111
42	ELF1	chr10:99051696-99052863	MCF-7	breast:	n/a	chr10:99052175-99052187
43	JUND	chr10:99051962-99052873	HepG2	liver:	n/a	chr10:99052755-99052764 chr10:99052754-99052763 chr10:99052753-99052764
44	MAX	chr10:99051541-99052840	ECC-1	luminal epithelium:	n/a	chr10:99052755-99052764 chr10:99052578-99052588 chr10:99052423-99052433
45	HCFC1	chr10:99051807-99052868	K562	blood:	n/a	n/a
46	SIX5	chr10:99052353-99052831	H1-hESC	embryonic stem cell:	n/a	chr10:99052619-99052628 chr10:99052621-99052630 chr10:99052618-99052632
47	ZBTB7A	chr10:99051850-99052878	ECC-1	luminal epithelium:	n/a	n/a
48	SIX5	chr10:99052088-99052844	A549	lung:	n/a	chr10:99052619-99052628 chr10:99052621-99052630 chr10:99052618-99052632
49	CREB1	chr10:99052091-99052819	H1-hESC	embryonic stem cell:	n/a	n/a
50	SIX5	chr10:99051819-99052986	A549	lung:	n/a	chr10:99052619-99052628 chr10:99052621-99052630 chr10:99052618-99052632

No.	Distal block	Cell Line	Cell type
1	chr10:99052581..99054143-chr10:99054832..99057681,2	K562	blood:
2	chr10:99050912..99053751-chr10:99091766..99095025,5	MCF-7	breast:
3	chr10:99049975..99053832-chr10:99093402..99096465,5	K562	blood:
4	chr10:99048545..99053546-chr10:99092341..99096465,6	K562	blood:
5	chr10:99052531..99053031-chr12:32259435..32260354,2	Hela-S3	cervix:
6	chr10:99050343..99055587-chr10:99077475..99082102,7	MCF-7	breast:
7	chr10:99051058..99054984-chr10:99078319..99082092,7	MCF-7	breast:
8	chr10:99051582..99055310-chr10:99077169..99083058,6	K562	blood:
9	chr10:99051582..99054067-chr10:99077169..99079188,3	K562	blood:
10	chr10:99052282..99052884-chr5:41870193..41871067,2	Hela-S3	cervix:
11	chr10:99051045..99053385-chr10:99092824..99094336,2	MCF-7	breast:
12	chr10:99050735..99053520-chr16:284621..286236,2	MCF-7	breast:

Variant related genes	Relation type
ARHGAP19-SLIT1	TF binding region
ARHGAP19	TF binding region
ENSG00000167930	Chromatin interaction
ENSG00000181274	Chromatin interaction
ENSG00000151746	Chromatin interaction
ENSG00000165879	Chromatin interaction
ENSG00000248668	Chromatin interaction
ENSG00000083720	Chromatin interaction
ENSG00000225850	Chromatin interaction

Extended variants
information (count: 82 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:74)

rs_ID	r²[population]
rs10444015	1.00[AFR][1000 genomes]
rs10509713	0.93[AMR][1000 genomes]
rs11189064	0.87[AMR][1000 genomes]
rs11189065	0.87[AMR][1000 genomes]
rs11189066	0.87[AMR][1000 genomes]
rs11189067	0.87[AMR][1000 genomes]
rs11189072	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11189073	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11189074	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11189076	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11189077	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11189078	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11189080	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11189081	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11189084	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11189086	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs11189087	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs11189090	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11189092	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11189093	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs11189094	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11189095	0.83[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs11189096	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11189097	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11189098	1.00[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs11189106	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11189109	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11189117	0.87[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs11189118	0.87[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs11189125	0.81[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs11189129	1.00[AFR][1000 genomes];0.87[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs11189136	0.87[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs11189140	0.87[AMR][1000 genomes]
rs11189141	1.00[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs11189143	0.87[AMR][1000 genomes]
rs11189145	0.93[AMR][1000 genomes]
rs11189146	0.93[AMR][1000 genomes]
rs11189148	0.93[AMR][1000 genomes]
rs11189149	0.93[AMR][1000 genomes]
rs11189158	0.93[AMR][1000 genomes]
rs11189162	0.87[AMR][1000 genomes]
rs11189166	0.93[AMR][1000 genomes]
rs11189170	0.93[AMR][1000 genomes]
rs11189198	1.00[AFR][1000 genomes]
rs12355279	0.93[AMR][1000 genomes]
rs12355311	0.87[AMR][1000 genomes]
rs12355523	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12355526	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12356559	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12356626	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12356648	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12356909	0.87[AMR][1000 genomes]
rs12358104	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12358257	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12358267	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12358452	0.87[AMR][1000 genomes]
rs12358777	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12359143	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12359467	0.87[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs12359643	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12359654	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12360528	0.81[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs1414742	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1810982	0.87[AMR][1000 genomes]
rs1970191	0.93[AMR][1000 genomes]
rs1970454	0.93[AMR][1000 genomes]
rs41284270	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes]
rs45527941	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes]
rs7917149	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs884450	0.93[AMR][1000 genomes]
rs9645543	0.87[AMR][1000 genomes]
rs9645559	0.87[AMR][1000 genomes]
rs9645560	0.87[AMR][1000 genomes]
rs9645561	0.87[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv532232	chr10:98360775-99141797	Enhancers Strong transcription Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	53 gene(s)	inside rSNPs	diseases
2	nsv1041614	chr10:98928281-99083056	Weak transcription Strong transcription Flanking Bivalent TSS/Enh Enhancers Bivalent/Poised TSS Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
3	nsv1045553	chr10:98944397-99122203	Strong transcription Weak transcription Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Enhancers Genic enhancers Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	27 gene(s)	inside rSNPs	diseases
4	nsv540750	chr10:98944397-99122203	Bivalent Enhancer Active TSS Enhancers Flanking Active TSS Strong transcription Genic enhancers Weak transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	27 gene(s)	inside rSNPs	diseases
5	nsv831952	chr10:98998344-99145924	Enhancers Active TSS Weak transcription Strong transcription Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	28 gene(s)	inside rSNPs	diseases
6	nsv895914	chr10:99006083-99131676	Active TSS Flanking Active TSS Enhancers Weak transcription Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	26 gene(s)	inside rSNPs	diseases
7	nsv7507	chr10:99031233-99070690	Active TSS Enhancers Flanking Active TSS Weak transcription Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
8	nsv975787	chr10:99048466-99061224	Weak transcription Active TSS Flanking Active TSS Enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Strong transcription	TF binding region CpG island Chromatin interactive region	13 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:14 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:99051800-99053200	Active TSS	HepG2	liver
2	chr10:99052000-99057600	Weak transcription	Fetal Heart	heart
3	chr10:99052400-99063800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
4	chr10:99052600-99053000	Enhancers	Primary neutrophils fromperipheralblood	blood
5	chr10:99052600-99053400	Enhancers	Fetal Intestine Large	intestine
6	chr10:99052600-99054400	Enhancers	Liver	Liver
7	chr10:99052600-99061800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
8	chr10:99052800-99053200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
9	chr10:99052800-99053200	Enhancers	Dnd41	blood
10	chr10:99052800-99054400	Enhancers	Fetal Intestine Small	intestine
11	chr10:99052800-99054600	Enhancers	K562	blood
12	chr10:99052800-99057000	Weak transcription	A549	lung
13	chr10:99052800-99057600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
14	chr10:99052800-99057600	Weak transcription	Muscle Satellite Cultured Cells	--

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links