Variant report

Variant	rs28399101
Chromosome Location	chr15:92392876-92392877
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	CTCF	chr15:92392867-92393328	HCT-116	colon:	n/a	chr15:92393083-92393104 chr15:92392991-92392999 chr15:92393086-92393094 chr15:92393081-92393099
2	CTCF	chr15:92392851-92393353	MCF-7	breast:	n/a	chr15:92393083-92393104 chr15:92392991-92392999 chr15:92393086-92393094 chr15:92393081-92393099
3	RAD21	chr15:92392868-92393374	MCF-7	breast:	n/a	chr15:92393084-92393091
4	RAD21	chr15:92392855-92393311	A549	lung:	n/a	chr15:92393084-92393091
5	CTCF	chr15:92392831-92393293	A549	lung:	n/a	chr15:92393083-92393104 chr15:92392991-92392999 chr15:92393086-92393094 chr15:92393081-92393099
6	RAD21	chr15:92392791-92393279	A549	lung:	n/a	chr15:92393084-92393091
7	CTCF	chr15:92392803-92393373	MCF-7	breast:	n/a	chr15:92393083-92393104 chr15:92392991-92392999 chr15:92393086-92393094 chr15:92393081-92393099
8	CTCF	chr15:92392583-92393448	SK-N-SH	brain:	n/a	chr15:92393083-92393104 chr15:92392991-92392999 chr15:92393086-92393094 chr15:92393081-92393099
9	CTCF	chr15:92392467-92393496	A549	lung:	n/a	chr15:92393083-92393104 chr15:92392991-92392999 chr15:92393086-92393094 chr15:92393081-92393099
10	SMC3	chr15:92392509-92393401	SK-N-SH	brain:	n/a	chr15:92393083-92393097
11	RAD21	chr15:92392876-92393381	H1-hESC	embryonic stem cell:	n/a	chr15:92393084-92393091
12	CTCF	chr15:92392858-92393276	IMR90	lung:	n/a	chr15:92393083-92393104 chr15:92392991-92392999 chr15:92393086-92393094 chr15:92393081-92393099
13	CTCF	chr15:92392760-92392910	GM06990	blood:	n/a	n/a
14	RAD21	chr15:92392772-92393387	SK-N-SH	brain:	n/a	chr15:92393084-92393091

No.	Distal block	Cell Line	Cell type
1	chr15:92392580..92393174-chr15:92484877..92485617,2	MCF-7	breast:
2	chr15:92065548..92066466-chr15:92392394..92393130,2	MCF-7	breast:
3	chr15:92392604..92393548-chr15:92620316..92621247,3	MCF-7	breast:
4	chr15:92389343..92391960-chr15:92391997..92394160,2	K562	blood:
5	chr15:92392649..92393225-chr15:92625326..92625925,2	MCF-7	breast:

Variant related genes	Relation type
SLCO3A1	TF binding region

Extended variants
information (count: 12 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:10)

rs_ID	r²[population]
rs11852976	1.00[ASN][1000 genomes]
rs11858157	1.00[ASN][1000 genomes]
rs28478969	0.90[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs28504271	1.00[ASN][1000 genomes]
rs28517863	1.00[ASN][1000 genomes]
rs28534923	1.00[ASN][1000 genomes]
rs28536772	0.89[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs28688912	0.87[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs56359943	1.00[ASN][1000 genomes]
rs8025901	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1048635	chr15:92073294-92557339	Weak transcription Genic enhancers Flanking Active TSS Enhancers Strong transcription Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
2	nsv870094	chr15:92367354-92631647	Flanking Active TSS Weak transcription Enhancers Flanking Bivalent TSS/Enh Active TSS ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:38 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:92389000-92394800	Weak transcription	Brain Angular Gyrus	brain
2	chr15:92389200-92394800	Weak transcription	Ovary	ovary
3	chr15:92389800-92394600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
4	chr15:92389800-92394800	Weak transcription	Right Ventricle	heart
5	chr15:92391000-92393000	Enhancers	Brain Anterior Caudate	brain
6	chr15:92391200-92394400	Weak transcription	Brain Cingulate Gyrus	brain
7	chr15:92391200-92394800	Weak transcription	Brain Inferior Temporal Lobe	brain
8	chr15:92391800-92395400	Enhancers	Primary hematopoietic stem cells short term culture	blood
9	chr15:92392200-92393000	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
10	chr15:92392200-92393400	Enhancers	Brain Substantia Nigra	brain
11	chr15:92392400-92393400	Enhancers	Primary T killer naive cells fromperipheralblood	blood
12	chr15:92392400-92394000	Enhancers	Primary T helper naive cells from peripheral blood	blood
13	chr15:92392400-92394000	Enhancers	Primary T helper naive cells fromperipheralblood	blood
14	chr15:92392400-92394000	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
15	chr15:92392400-92395600	Enhancers	Primary T helper cells fromperipheralblood	blood
16	chr15:92392600-92393000	Flanking Active TSS	Primary hematopoietic stem cells	blood
17	chr15:92392600-92393000	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Female	--
18	chr15:92392600-92393000	Enhancers	Fetal Heart	heart
19	chr15:92392600-92393400	Enhancers	Primary T cells effector/memory enriched fromperipheralblood	blood
20	chr15:92392600-92393400	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
21	chr15:92392600-92393800	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
22	chr15:92392600-92394200	Enhancers	Primary T cells from cord blood	blood
23	chr15:92392600-92395000	Enhancers	Monocytes-CD14+_RO01746	blood
24	chr15:92392600-92395600	Enhancers	Primary T helper cells PMA-I stimulated	--
25	chr15:92392600-92395800	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
26	chr15:92392800-92393000	Enhancers	ES-I3 Cell Line	embryonic stem cell
27	chr15:92392800-92393000	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
28	chr15:92392800-92393000	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
29	chr15:92392800-92393000	Enhancers	Breast Myoepithelial Primary Cells	Breast
30	chr15:92392800-92393000	Enhancers	Primary mononuclear cells fromperipheralblood	Blood
31	chr15:92392800-92393000	Flanking Active TSS	Brain Hippocampus Middle	brain
32	chr15:92392800-92393400	Flanking Active TSS	Primary T killer memory cells from peripheral blood	blood
33	chr15:92392800-92393400	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
34	chr15:92392800-92394000	Weak transcription	Duodenum Mucosa	Duodenum
35	chr15:92392800-92394800	Weak transcription	Adipose Nuclei	Adipose
36	chr15:92392800-92395200	Enhancers	Primary neutrophils fromperipheralblood	blood
37	chr15:92392800-92395400	Enhancers	Primary monocytes fromperipheralblood	blood
38	chr15:92392800-92395400	Enhancers	Primary T regulatory cells fromperipheralblood	blood

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