Variant report

Variant	rs76541666
Chromosome Location	chr3:98250149-98250150
allele	A/G
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	MTA3	chr3:98249535-98254032	GM12878	blood:	n/a	n/a
2	POLR2A	chr3:98248620-98252823	GM12892	blood:	n/a	n/a
3	POLR2A	chr3:98248655-98253486	GM15510	blood:	n/a	n/a
4	RCOR1	chr3:98250097-98251228	GM12878	blood:	n/a	n/a
5	POLR2A	chr3:98249565-98253944	GM18951	blood:	n/a	n/a
6	POLR2A	chr3:98248658-98256543	GM18505	blood:	n/a	n/a
7	MXI1	chr3:98250141-98251489	GM12878	blood:	n/a	n/a
8	RUNX3	chr3:98250052-98252812	GM12878	blood:	n/a	chr3:98250633-98250642 chr3:98250633-98250642
9	MAZ	chr3:98249802-98252037	GM12878	blood:	n/a	n/a
10	POLR2A	chr3:98249459-98253009	GM12891	blood:	n/a	n/a
11	POLR2A	chr3:98248619-98253488	GM12892	blood:	n/a	n/a
12	RUNX3	chr3:98250085-98251091	GM12878	blood:	n/a	chr3:98250633-98250642 chr3:98250633-98250642
13	POLR2A	chr3:98248683-98253982	GM19099	blood:	n/a	n/a
14	POLR2A	chr3:98248665-98250369	GM12891	blood:	n/a	n/a
15	FOXM1	chr3:98250006-98252764	GM12878	blood:	n/a	n/a
16	PML	chr3:98245909-98254043	GM12878	blood:	n/a	chr3:98253390-98253398
17	POLR2A	chr3:98248613-98253578	GM12892	blood:	n/a	n/a
18	PML	chr3:98249832-98250263	GM12878	blood:	n/a	n/a
19	POLR2A	chr3:98248690-98256144	GM19193	blood:	n/a	n/a
20	POLR2A	chr3:98248444-98256619	GM12878	blood:	n/a	n/a
21	NFATC1	chr3:98248840-98253424	GM12878	blood:	n/a	n/a
22	POLR2A	chr3:98249471-98252678	GM12891	blood:	n/a	n/a
23	TBL1XR1	chr3:98250056-98252476	GM12878	blood:	n/a	n/a
24	ATF2	chr3:98249967-98252577	GM12878	blood:	n/a	n/a
25	POLR2A	chr3:98248626-98253505	GM12878	blood:	n/a	n/a
26	POLR2A	chr3:98248630-98254033	GM12878	blood:	n/a	n/a
27	NFATC1	chr3:98248493-98253590	GM12878	blood:	n/a	n/a
28	POLR2A	chr3:98248622-98252794	GM12878	blood:	n/a	n/a
29	POLR2A	chr3:98248610-98252751	GM12891	blood:	n/a	n/a
30	BHLHE40	chr3:98249324-98251183	GM12878	blood:	n/a	n/a
31	TBP	chr3:98249482-98252493	GM12878	blood:	n/a	n/a
32	CUX1	chr3:98249608-98250960	GM12878	blood:	n/a	n/a
33	POLR2A	chr3:98249416-98250349	GM12878	blood:	n/a	n/a
34	POLR2A	chr3:98248703-98256575	GM12892	blood:	n/a	n/a
35	CHD1	chr3:98246186-98256496	GM12878	blood:	n/a	n/a
36	POLR2A	chr3:98248491-98253508	GM12892	blood:	n/a	n/a
37	POLR2A	chr3:98248676-98253986	GM12891	blood:	n/a	n/a
38	NFIC	chr3:98250026-98256659	GM12878	blood:	n/a	chr3:98252160-98252176 chr3:98250228-98250256 chr3:98250610-98250638 chr3:98252159-98252176

Variant related genes	Relation type
GPR15	TF binding region

Extended variants
information (count: 7 )
Associated
traits (count: 0)

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv528056	chr3:98101101-98317836	Enhancers Strong transcription Weak transcription Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Active TSS Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	17 gene(s)	inside rSNPs	diseases
2	nsv520503	chr3:98102801-98317836	Weak transcription Enhancers Genic enhancers Flanking Active TSS Strong transcription Transcr. at gene 5' and 3' Active TSS ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	17 gene(s)	inside rSNPs	diseases
3	nsv834774	chr3:98108423-98274064	Active TSS Weak transcription Enhancers Genic enhancers Transcr. at gene 5' and 3' Flanking Active TSS Strong transcription ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	12 gene(s)	inside rSNPs	diseases
4	nsv834775	chr3:98170059-98367552	Enhancers Transcr. at gene 5' and 3' Weak transcription Strong transcription Active TSS Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	17 gene(s)	inside rSNPs	diseases
5	esv3390386	chr3:98174549-98579953	Genic enhancers Strong transcription Enhancers Weak transcription ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Active TSS Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	22 gene(s)	inside rSNPs	diseases
6	nsv591065	chr3:98204198-98766326	Flanking Active TSS Enhancers Strong transcription Weak transcription Active TSS Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
7	nsv236502	chr3:98250046-98254624	Transcr. at gene 5' and 3' Active TSS Enhancers Weak transcription Bivalent/Poised TSS Flanking Active TSS	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:6 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:98242200-98250800	Weak transcription	Duodenum Mucosa	Duodenum
2	chr3:98249200-98250800	Active TSS	GM12878-XiMat	blood
3	chr3:98249200-98250800	Weak transcription	K562	blood
4	chr3:98249200-98251200	Weak transcription	Primary hematopoietic stem cells short term culture	blood
5	chr3:98249400-98250200	Weak transcription	Rectal Mucosa Donor 29	rectum
6	chr3:98249800-98250400	Enhancers	Primary T helper memory cells from peripheral blood 2	blood

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