Variant report

Variant	rs549088100
Chromosome Location	chr15:99863978-99863979
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	FOXM1	chr15:99863760-99865090	ECC-1	luminal epithelium:	n/a	n/a
2	NFIC	chr15:99863950-99864889	ECC-1	luminal epithelium:	n/a	n/a
3	FOXM1	chr15:99863915-99865005	ECC-1	luminal epithelium:	n/a	n/a
4	BCL3	chr15:99863946-99865300	A549	lung:	n/a	n/a
5	SP1	chr15:99863948-99865275	A549	lung:	n/a	n/a
6	FOSL2	chr15:99863627-99865055	A549	lung:	n/a	chr15:99864980-99864989
7	GATA3	chr15:99863925-99865178	A549	lung:	n/a	n/a
8	GABPA	chr15:99863973-99864845	A549	lung:	n/a	n/a
9	MAX	chr15:99863977-99865316	A549	lung:	n/a	n/a
10	TCF12	chr15:99863854-99865392	A549	lung:	n/a	n/a
11	EP300	chr15:99863966-99865304	A549	lung:	n/a	chr15:99865125-99865132 chr15:99864949-99864959 chr15:99864940-99864950
12	FOS	chr15:99863963-99864990	MCF10A-Er-Src	breast:	n/a	chr15:99864424-99864435 chr15:99864366-99864377 chr15:99864980-99864989
13	SP1	chr15:99863540-99865295	A549	lung:	n/a	n/a
14	EP300	chr15:99863972-99865091	ECC-1	luminal epithelium:	n/a	chr15:99864949-99864959 chr15:99864940-99864950
15	FOXA2	chr15:99863813-99865262	A549	lung:	n/a	chr15:99864941-99864953 chr15:99864923-99864935 chr15:99864240-99864252
16	CEBPB	chr15:99863929-99864905	A549	lung:	n/a	n/a
17	ATF3	chr15:99863947-99864628	A549	lung:	n/a	n/a
18	EP300	chr15:99863826-99865396	A549	lung:	n/a	chr15:99865125-99865132 chr15:99864949-99864959 chr15:99864940-99864950
19	REST	chr15:99863825-99864833	A549	lung:	n/a	n/a

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr15:99856389..99859314-chr15:99863031..99866195,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000268730	TF binding region
LRRC28	TF binding region

Extended variants
information (count: 20 )
Associated
traits (count: 0)

Variant overlapped rSNPs/rCNVs (count:20 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv531079	chr15:98907913-99878547	Strong transcription Weak transcription Genic enhancers Active TSS Enhancers ZNF genes & repeats Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	97 gene(s)	inside rSNPs	diseases
2	nsv1039575	chr15:98982045-99924685	Weak transcription Bivalent Enhancer Enhancers Genic enhancers Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	96 gene(s)	inside rSNPs	diseases
3	nsv869529	chr15:99416774-99903351	Genic enhancers Weak transcription Enhancers Flanking Active TSS Strong transcription Bivalent Enhancer Active TSS ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	60 gene(s)	inside rSNPs	diseases
4	nsv1055008	chr15:99477144-100019861	Enhancers Weak transcription Strong transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	46 gene(s)	inside rSNPs	diseases
5	nsv904543	chr15:99513231-99991506	Weak transcription Flanking Active TSS Enhancers Strong transcription Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	45 gene(s)	inside rSNPs	diseases
6	nsv533926	chr15:99519820-99997114	Enhancers Active TSS Weak transcription Bivalent Enhancer Flanking Active TSS Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	45 gene(s)	inside rSNPs	diseases
7	nsv915926	chr15:99519820-100138705	Active TSS Enhancers Weak transcription Flanking Bivalent TSS/Enh Strong transcription Flanking Active TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	55 gene(s)	inside rSNPs	diseases
8	nsv916822	chr15:99621061-99878564	Enhancers Flanking Active TSS Weak transcription Strong transcription Genic enhancers Bivalent Enhancer ZNF genes & repeats Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	30 gene(s)	inside rSNPs	diseases
9	nsv949203	chr15:99621061-99932797	Strong transcription Weak transcription Enhancers Bivalent Enhancer Active TSS Genic enhancers ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	31 gene(s)	inside rSNPs	diseases
10	nsv817289	chr15:99621061-100138705	Weak transcription Flanking Active TSS Enhancers ZNF genes & repeats Strong transcription Bivalent/Poised TSS Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	44 gene(s)	inside rSNPs	diseases
11	nsv431411	chr15:99621061-100143999	Enhancers Flanking Active TSS Weak transcription Active TSS Bivalent/Poised TSS Strong transcription Genic enhancers ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	44 gene(s)	inside rSNPs	diseases
12	nsv570716	chr15:99629901-99916332	Weak transcription Active TSS Transcr. at gene 5' and 3' Strong transcription Enhancers Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	30 gene(s)	inside rSNPs	diseases
13	nsv904546	chr15:99696046-100166300	Flanking Active TSS Weak transcription Enhancers Bivalent Enhancer Strong transcription Active TSS ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	41 gene(s)	inside rSNPs	diseases
14	nsv1052528	chr15:99736977-99874210	Active TSS Weak transcription Transcr. at gene 5' and 3' ZNF genes & repeats Genic enhancers Flanking Active TSS Enhancers Strong transcription Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	25 gene(s)	inside rSNPs	diseases
15	nsv1036346	chr15:99752391-100365458	Flanking Bivalent TSS/Enh Flanking Active TSS Strong transcription Enhancers Weak transcription Active TSS Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	47 gene(s)	inside rSNPs	diseases
16	nsv542520	chr15:99752391-100365458	Enhancers Flanking Active TSS Weak transcription Active TSS Strong transcription Genic enhancers ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	47 gene(s)	inside rSNPs	diseases
17	nsv1045367	chr15:99781626-99892182	Enhancers Active TSS Flanking Active TSS Weak transcription Strong transcription ZNF genes & repeats Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	25 gene(s)	inside rSNPs	diseases
18	nsv1051560	chr15:99837102-100124483	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Strong transcription Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	19 gene(s)	inside rSNPs	diseases
19	nsv817201	chr15:99839238-100537341	Weak transcription Strong transcription Flanking Active TSS Enhancers Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh 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	36 gene(s)	inside rSNPs	diseases
20	esv3426665	chr15:99862575-99866059	Enhancers Flanking Active TSS Active TSS Weak transcription ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:45 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:99793000-99866600	Weak transcription	Gastric	stomach
2	chr15:99833200-99875800	Weak transcription	Thymus	Thymus
3	chr15:99835200-99864200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
4	chr15:99847400-99877200	Weak transcription	Ovary	ovary
5	chr15:99853000-99876000	Weak transcription	Duodenum Mucosa	Duodenum
6	chr15:99853200-99875400	Weak transcription	Fetal Thymus	thymus
7	chr15:99853600-99875800	Weak transcription	Fetal Intestine Large	intestine
8	chr15:99854200-99864200	Weak transcription	Left Ventricle	heart
9	chr15:99854400-99864000	Weak transcription	Primary B cells from peripheral blood	blood
10	chr15:99854400-99876000	Weak transcription	Dnd41	blood
11	chr15:99858600-99876600	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
12	chr15:99859400-99906600	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
13	chr15:99860400-99864400	Enhancers	HMEC	breast
14	chr15:99860400-99864800	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
15	chr15:99860600-99864000	Enhancers	Osteobl	bone
16	chr15:99860600-99864200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
17	chr15:99860600-99865000	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
18	chr15:99860600-99867200	Enhancers	Breast Myoepithelial Primary Cells	Breast
19	chr15:99860600-99867200	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
20	chr15:99860600-99869200	Enhancers	HepG2	liver
21	chr15:99861000-99864000	Weak transcription	HUVEC	blood vessel
22	chr15:99861000-99864200	Weak transcription	Aorta	Aorta
23	chr15:99861000-99865600	Weak transcription	Psoas Muscle	Psoas
24	chr15:99861800-99876600	Weak transcription	Primary T cells from cord blood	blood
25	chr15:99862400-99864400	Enhancers	NHEK	skin
26	chr15:99862800-99864000	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
27	chr15:99862800-99864000	Enhancers	Muscle Satellite Cultured Cells	--
28	chr15:99862800-99864200	Enhancers	Hela-S3	cervix
29	chr15:99862800-99865400	Flanking Active TSS	A549	lung
30	chr15:99863000-99864000	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
31	chr15:99863000-99864000	Enhancers	NH-A	brain
32	chr15:99863000-99864200	Enhancers	Skeletal Muscle Male	skeletal muscle
33	chr15:99863000-99864200	Enhancers	HSMMtube	muscle
34	chr15:99863000-99865400	Enhancers	HSMM	muscle
35	chr15:99863000-99866800	Enhancers	Skeletal Muscle Female	skeletal muscle
36	chr15:99863200-99864200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
37	chr15:99863200-99881200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
38	chr15:99863200-99899800	Weak transcription	Primary hematopoietic stem cells short term culture	blood
39	chr15:99863400-99864000	Enhancers	NHDF-Ad	bronchial
40	chr15:99863400-99865200	Enhancers	NHLF	lung
41	chr15:99863600-99864200	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
42	chr15:99863600-99866000	Enhancers	Liver	Liver
43	chr15:99863800-99864200	Flanking Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
44	chr15:99863800-99865200	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
45	chr15:99863800-99865200	Enhancers	Fetal Heart	heart

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