Variant report

Variant	rs2899599
Chromosome Location	chr15:57028915-57028916
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	JUND	chr15:57028513-57028954	K562	blood:	n/a	chr15:57028695-57028706
2	CREB1	chr15:57028502-57029127	K562	blood:	n/a	n/a
3	STAT1	chr15:57028464-57030684	Hela-S3	cervix:	n/a	chr15:57029805-57029816 chr15:57029776-57029787
4	E2F6	chr15:57028618-57029414	H1-hESC	embryonic stem cell:	n/a	n/a
5	IRF1	chr15:57028345-57028921	K562	blood:	n/a	n/a
6	JUN	chr15:57028558-57029051	K562	blood:	n/a	n/a
7	CREB1	chr15:57028494-57029032	HepG2	liver:	n/a	n/a
8	BACH1	chr15:57028641-57029368	K562	blood:	n/a	n/a
9	MAFF	chr15:57028583-57029073	K562	blood:	n/a	n/a
10	TBL1XR1	chr15:57028675-57029106	K562	blood:	n/a	n/a
11	CREB1	chr15:57028472-57028989	K562	blood:	n/a	n/a
12	ATF1	chr15:57028588-57028939	K562	blood:	n/a	n/a
13	CREB1	chr15:57028523-57028981	HepG2	liver:	n/a	n/a
14	JUND	chr15:57028447-57028926	Hela-S3	cervix:	n/a	chr15:57028695-57028706

Variant related genes	Relation type
ZNF280D	TF binding region

Extended variants
information (count: 64 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:61)

rs_ID	r²[population]
rs10518872	1.00[CEU][hapmap];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1087705	0.88[EUR][1000 genomes]
rs11071285	1.00[CEU][hapmap];0.82[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs11071286	0.82[AMR][1000 genomes]
rs12437635	1.00[CEU][hapmap];0.80[AMR][1000 genomes]
rs12437714	0.83[AMR][1000 genomes]
rs12437735	0.86[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs12438377	0.90[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs12438728	1.00[CEU][hapmap];0.94[EUR][1000 genomes]
rs12439116	1.00[CEU][hapmap];0.97[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs12439563	0.94[EUR][1000 genomes]
rs12439586	0.88[EUR][1000 genomes]
rs12439697	0.88[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs12440006	0.94[EUR][1000 genomes]
rs12440725	1.00[CEU][hapmap]
rs12440891	1.00[CEU][hapmap]
rs12441746	0.89[EUR][1000 genomes]
rs12441769	0.86[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs12441792	0.90[AMR][1000 genomes]
rs12442069	0.90[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs12442630	0.83[AMR][1000 genomes]
rs12442662	1.00[CEU][hapmap]
rs12443178	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs12903143	0.81[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs12907983	0.94[EUR][1000 genomes]
rs1364541	0.97[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs1564557	1.00[CEU][hapmap];0.81[EUR][1000 genomes]
rs1586022	0.83[EUR][1000 genomes]
rs1600829	0.94[EUR][1000 genomes]
rs1600831	0.89[EUR][1000 genomes]
rs1631905	1.00[CEU][hapmap];0.82[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs1647386	0.88[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs1647391	0.85[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs16977123	0.83[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs17238859	0.82[EUR][1000 genomes]
rs17238880	1.00[CEU][hapmap];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17238894	0.90[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs17238901	0.86[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs17819592	0.83[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs17819616	0.90[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs17819646	1.00[CEU][hapmap]
rs1834199	0.92[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs2052641	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs2161935	1.00[CEU][hapmap];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2170461	0.83[EUR][1000 genomes]
rs2170462	0.88[EUR][1000 genomes]
rs2459565	0.88[EUR][1000 genomes]
rs2676178	0.88[EUR][1000 genomes]
rs2676181	0.88[EUR][1000 genomes]
rs2733231	0.83[EUR][1000 genomes]
rs4287503	0.97[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs4424865	0.83[AMR][1000 genomes]
rs4594195	0.83[EUR][1000 genomes]
rs4774869	0.83[EUR][1000 genomes]
rs4774885	1.00[CEU][hapmap];0.94[EUR][1000 genomes]
rs480701	1.00[CEU][hapmap];0.83[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs6493888	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs7176472	1.00[CEU][hapmap];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs74015901	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs8029710	0.85[EUR][1000 genomes]
rs966807	0.90[AMR][1000 genomes];0.83[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3422474	chr15:56867190-57244330	Strong transcription ZNF genes & repeats Active TSS Enhancers Weak transcription Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases
2	nsv569576	chr15:57012816-57126917	Enhancers Active TSS Flanking Active TSS Weak transcription Strong transcription Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
3	esv3387219	chr15:57027535-57031262	Weak transcription Enhancers Flanking Active TSS	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:32 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:57026000-57029400	Weak transcription	NH-A	brain
2	chr15:57026200-57029000	Weak transcription	Small Intestine	intestine
3	chr15:57026200-57029200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
4	chr15:57026200-57029200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
5	chr15:57026200-57029200	Weak transcription	Ovary	ovary
6	chr15:57026200-57029600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
7	chr15:57026200-57032400	Weak transcription	Pancreas	Pancrea
8	chr15:57026400-57029000	Weak transcription	Rectal Mucosa Donor 31	rectum
9	chr15:57026400-57029200	Enhancers	K562	blood
10	chr15:57026400-57029400	Weak transcription	Fetal Kidney	kidney
11	chr15:57026800-57029000	Weak transcription	Fetal Thymus	thymus
12	chr15:57026800-57030000	Weak transcription	Duodenum Smooth Muscle	Duodenum
13	chr15:57027600-57033000	Enhancers	HepG2	liver
14	chr15:57027800-57030200	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
15	chr15:57027800-57032600	Enhancers	Fetal Adrenal Gland	Adrenal Gland
16	chr15:57028200-57029000	Enhancers	Sigmoid Colon	Sigmoid Colon
17	chr15:57028200-57029800	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
18	chr15:57028400-57030600	Enhancers	Rectal Smooth Muscle	rectum
19	chr15:57028600-57029000	Enhancers	A549	lung
20	chr15:57028600-57030400	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
21	chr15:57028600-57030400	Enhancers	Colon Smooth Muscle	Colon
22	chr15:57028600-57030600	Enhancers	HUVEC	blood vessel
23	chr15:57028600-57030800	Enhancers	Hela-S3	cervix
24	chr15:57028800-57029200	Flanking Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
25	chr15:57028800-57029800	Enhancers	iPS-15b Cell Line	embryonic stem cell
26	chr15:57028800-57029800	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
27	chr15:57028800-57030200	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
28	chr15:57028800-57030200	Enhancers	HUES6 Cell Line	embryonic stem cell
29	chr15:57028800-57030200	Enhancers	HUES64 Cell Line	embryonic stem cell
30	chr15:57028800-57030400	Enhancers	iPS-18 Cell Line	embryonic stem cell
31	chr15:57028800-57030600	Enhancers	Fetal Stomach	stomach
32	chr15:57028800-57031400	Enhancers	iPS-20b Cell Line	embryonic stem cell

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