Variant report

Variant	rs28413637
Chromosome Location	chr15:76025241-76025242
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:154)
CpG islands
(count:0)
Chromatin interactive
region (count:5)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

(count:154 , 50 per page) page: 1 2 3 4

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	CTCF	chr15:76025178-76025475	Lung_OC	lung:	n/a	n/a
2	RAD21	chr15:76025133-76025471	K562	blood:	n/a	n/a
3	SMC3	chr15:76025131-76025507	GM12878	blood:	n/a	n/a
4	CTCF	chr15:76025220-76025370	WI-38	lung:	n/a	n/a
5	BACH1	chr15:76025222-76025334	H1-hESC	embryonic stem cell:	n/a	n/a
6	ZNF263	chr15:76024999-76025782	HEK293-T-REx	kidney:	n/a	n/a
7	RUNX3	chr15:76025086-76025486	GM12878	blood:	n/a	n/a
8	CTCF	chr15:76025123-76025555	IMR90	lung:	n/a	n/a
9	CTCF	chr15:76024991-76025520	GM19240	blood:	n/a	n/a
10	RUNX3	chr15:76025058-76025550	GM12878	blood:	n/a	n/a
11	CTCF	chr15:76025089-76025519	K562	blood:	n/a	n/a
12	CTCF	chr15:76025189-76025474	MCF-7	breast:	n/a	n/a
13	USF2	chr15:76025229-76025363	Hela-S3	cervix:	n/a	n/a
14	CTCF	chr15:76025199-76025488	Pancreas_OC	pancreas:	n/a	n/a
15	CBX3	chr15:76024949-76025515	K562	blood:	n/a	n/a
16	ZNF384	chr15:76025229-76025390	K562	blood:	n/a	n/a
17	BHLHE40	chr15:76025133-76025548	K562	blood:	n/a	n/a
18	TBL1XR1	chr15:76025127-76025463	GM12878	blood:	n/a	n/a
19	EBF1	chr15:76025239-76025445	GM12878	blood:	n/a	chr15:76025403-76025414
20	MAZ	chr15:76025179-76025451	Hela-S3	cervix:	n/a	n/a
21	CTCF	chr15:76025216-76025457	GM13976	blood:	n/a	n/a
22	CTCF	chr15:76025212-76025441	LNCaP	prostate:	n/a	n/a
23	CTCF	chr15:76025161-76025484	K562	blood:	n/a	n/a
24	GABPA	chr15:76025047-76025484	H1-hESC	embryonic stem cell:	n/a	n/a
25	RAD21	chr15:76025126-76025391	GM12878	blood:	n/a	n/a
26	CTCF	chr15:76025240-76025390	HepG2	liver:	n/a	n/a
27	CTCF	chr15:76025170-76025485	H1-hESC	embryonic stem cell:	n/a	n/a
28	CTCF	chr15:76025183-76025476	GM10248	blood:	n/a	n/a
29	ELF1	chr15:76024988-76025465	GM12878	blood:	n/a	n/a
30	CTCF	chr15:76025129-76025537	MCF-7	breast:	n/a	n/a
31	CTCF	chr15:76025212-76025453	HepG2	liver:	n/a	n/a
32	CTCF	chr15:76025129-76025478	A549	lung:	n/a	n/a
33	RAD21	chr15:76025117-76025521	MCF-7	breast:	n/a	n/a
34	CTCF	chr15:76025240-76025390	A549	lung:	n/a	n/a
35	GTF2F1	chr15:76025172-76025449	Hela-S3	cervix:	n/a	n/a
36	CTCF	chr15:76025189-76025462	ProgFib	skin:	n/a	n/a
37	CTCF	chr15:76025222-76025450	GM20000	blood:	n/a	n/a
38	RCOR1	chr15:76024864-76025626	K562	blood:	n/a	n/a
39	RFX5	chr15:76025164-76025519	Hela-S3	cervix:	n/a	n/a
40	ZBTB7A	chr15:76025083-76025438	K562	blood:	n/a	n/a
41	FOXM1	chr15:76025062-76025500	GM12878	blood:	n/a	n/a
42	CTCF	chr15:76025169-76025490	GM19239	blood:	n/a	n/a
43	SMC3	chr15:76024969-76025663	SK-N-SH	brain:	n/a	n/a
44	CTCF	chr15:76025192-76025453	Hela-S3	cervix:	n/a	n/a
45	CTCF	chr15:76025240-76025390	Caco-2	colon:	n/a	n/a
46	CTCF	chr15:76025054-76025577	HCT-116	colon:	n/a	n/a
47	CTCF	chr15:76025180-76025503	A549	lung:	n/a	n/a
48	RAD21	chr15:76025228-76025521	ECC-1	luminal epithelium:	n/a	n/a
49	MAZ	chr15:76025055-76025726	IMR90	lung:	n/a	n/a
50	CTCF	chr15:76025010-76025466	Medullo	brain:	n/a	n/a

No data

(count:5 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr15:76021238..76025261-chr15:76028458..76030884,3	MCF-7	breast:
2	chr15:76019014..76021554-chr15:76023270..76025414,2	MCF-7	breast:
3	chr15:76024847..76025757-chr15:76094197..76095031,3	MCF-7	breast:
4	chr15:76024107..76026384-chr15:76031039..76032917,2	MCF-7	breast:
5	chr15:76023899..76025633-chr15:76028640..76031037,2	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000260288	TF binding region
ENSG00000260288	Chromatin interaction
ENSG00000256530	Chromatin interaction
ENSG00000246877	Chromatin interaction

Extended variants
information (count: 56 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:50)

rs_ID	r²[population]
rs12102136	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16967294	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16967508	1.00[EUR][1000 genomes]
rs28372561	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28395383	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28396803	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28398053	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28412110	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28414758	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28420558	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28432282	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28447345	1.00[EUR][1000 genomes]
rs28450740	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28461701	1.00[EUR][1000 genomes]
rs28504376	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28505697	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28510991	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28519586	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28521156	1.00[EUR][1000 genomes]
rs28530778	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28533248	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28550881	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28567605	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28628290	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28628820	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28645531	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28664638	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28677951	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28695912	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28711283	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28727341	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs3991368	1.00[AMR][1000 genomes]
rs56686272	1.00[AMR][1000 genomes]
rs57267837	1.00[AMR][1000 genomes]
rs58167659	1.00[AMR][1000 genomes]
rs58689645	1.00[AMR][1000 genomes]
rs58840197	1.00[EUR][1000 genomes]
rs59944002	1.00[AMR][1000 genomes]
rs60159975	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs60465775	1.00[AMR][1000 genomes]
rs60544586	1.00[AMR][1000 genomes]
rs73439281	1.00[AMR][1000 genomes]
rs73439290	1.00[AMR][1000 genomes]
rs73439302	1.00[AMR][1000 genomes]
rs73442996	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73444997	1.00[AMR][1000 genomes]
rs74026527	1.00[EUR][1000 genomes]
rs8026666	0.94[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs8033538	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs8041384	1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3445070	chr15:75623136-76045948	Enhancers Active TSS Weak transcription Genic enhancers Flanking Active TSS Bivalent/Poised TSS Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	165 gene(s)	inside rSNPs	diseases
2	nsv531903	chr15:75889302-76342128	Weak transcription Enhancers Strong transcription Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	97 gene(s)	inside rSNPs	diseases
3	nsv527186	chr15:75924443-76107730	Active TSS Enhancers Weak transcription Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	69 gene(s)	inside rSNPs	diseases
4	nsv904392	chr15:75930757-76039262	Enhancers Flanking Active TSS Active TSS Weak transcription Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	58 gene(s)	inside rSNPs	diseases
5	nsv904394	chr15:75948671-76039262	Active TSS Weak transcription Enhancers Bivalent Enhancer Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	21 gene(s)	inside rSNPs	diseases
6	nsv904396	chr15:75961518-76071105	Enhancers Bivalent Enhancer Flanking Active TSS Weak transcription Active TSS Flanking Bivalent TSS/Enh Genic enhancers Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	26 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:91 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:76013800-76029800	Weak transcription	HSMM	muscle
2	chr15:76020600-76030200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
3	chr15:76020800-76026400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
4	chr15:76021000-76030200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
5	chr15:76021000-76030200	Weak transcription	HMEC	breast
6	chr15:76021400-76029600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
7	chr15:76022000-76028800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
8	chr15:76023000-76026000	Enhancers	Fetal Muscle Trunk	muscle
9	chr15:76023400-76025600	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
10	chr15:76023600-76025400	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
11	chr15:76023600-76025400	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
12	chr15:76023600-76025400	Flanking Active TSS	Fetal Lung	lung
13	chr15:76023600-76025600	Enhancers	Duodenum Smooth Muscle	Duodenum
14	chr15:76023600-76025600	Enhancers	Fetal Thymus	thymus
15	chr15:76023600-76025800	Enhancers	Fetal Muscle Leg	muscle
16	chr15:76023800-76025400	Flanking Active TSS	Foreskin Fibroblast Primary Cells skin02	Skin
17	chr15:76023800-76025600	Bivalent Enhancer	Primary T cells fromperipheralblood	blood
18	chr15:76023800-76025600	Enhancers	Cortex derived primary cultured neurospheres	brain
19	chr15:76023800-76025600	Enhancers	Duodenum Mucosa	Duodenum
20	chr15:76023800-76025600	Enhancers	Ovary	ovary
21	chr15:76023800-76025600	Enhancers	Right Ventricle	heart
22	chr15:76023800-76027000	Enhancers	Placenta	Placenta
23	chr15:76024000-76025400	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
24	chr15:76024000-76025400	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
25	chr15:76024000-76025600	Enhancers	ES-I3 Cell Line	embryonic stem cell
26	chr15:76024000-76025600	Enhancers	Primary T helper cells PMA-I stimulated	--
27	chr15:76024000-76025600	Enhancers	Brain Cingulate Gyrus	brain
28	chr15:76024000-76027200	Enhancers	Fetal Kidney	kidney
29	chr15:76024200-76025400	Enhancers	Primary T helper naive cells fromperipheralblood	blood
30	chr15:76024200-76025400	Enhancers	Primary T helper cells fromperipheralblood	blood
31	chr15:76024200-76025600	Enhancers	Brain Anterior Caudate	brain
32	chr15:76024200-76027800	Enhancers	Spleen	Spleen
33	chr15:76024200-76029400	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
34	chr15:76024200-76029400	Weak transcription	Fetal Brain Female	brain
35	chr15:76024400-76025400	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
36	chr15:76024400-76025400	Enhancers	Adipose Nuclei	Adipose
37	chr15:76024400-76025600	Enhancers	Brain Inferior Temporal Lobe	brain
38	chr15:76024400-76025600	Enhancers	Left Ventricle	heart
39	chr15:76024400-76026600	Weak transcription	HSMMtube	muscle
40	chr15:76024400-76027000	Enhancers	Rectal Smooth Muscle	rectum
41	chr15:76024400-76030400	Weak transcription	Primary B cells from cord blood	blood
42	chr15:76024600-76025400	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
43	chr15:76024600-76025400	Weak transcription	Thymus	Thymus
44	chr15:76024600-76025800	Enhancers	Lung	lung
45	chr15:76024600-76026600	Weak transcription	Osteobl	bone
46	chr15:76024600-76030200	Weak transcription	Brain Hippocampus Middle	brain
47	chr15:76024800-76025400	Flanking Active TSS	Colon Smooth Muscle	Colon
48	chr15:76024800-76025400	Enhancers	K562	blood
49	chr15:76024800-76025600	Enhancers	Primary T killer naive cells fromperipheralblood	blood
50	chr15:76024800-76025600	Enhancers	Liver	Liver

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