Variant report

Variant	rs28587891
Chromosome Location	chr15:40365106-40365107
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr15:40361459..40366979-chr15:40389781..40395512,5	MCF-7	breast:
2	chr15:40355457..40358717-chr15:40360057..40366974,8	K562	blood:

Variant related genes	Relation type
ENSG00000248508	Chromatin interaction

Extended variants
information (count: 23 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:20)

rs_ID	r²[population]
rs11638521	0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs16970286	0.84[ASN][1000 genomes]
rs16970291	0.88[ASN][1000 genomes]
rs16970319	0.93[ASN][1000 genomes]
rs28361302	0.80[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs28371998	0.86[AMR][1000 genomes];0.80[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs28379715	0.81[AFR][1000 genomes];0.88[AMR][1000 genomes];0.81[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs28477230	0.83[ASN][1000 genomes]
rs28479712	0.98[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs28534747	0.89[EUR][1000 genomes]
rs28537079	0.83[AFR][1000 genomes];0.82[AMR][1000 genomes];0.85[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs28605815	0.91[ASN][1000 genomes]
rs28620926	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs4923852	0.83[EUR][1000 genomes]
rs4924415	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4924416	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7181230	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7183977	0.90[EUR][1000 genomes]
rs9972424	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9972442	1.00[AFR][1000 genomes];0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];0.92[ASN][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	nsv530816	chr15:40003136-40586792	Bivalent Enhancer Strong transcription Enhancers Weak transcription Flanking Bivalent TSS/Enh Flanking Active TSS Genic enhancers ZNF genes & repeats Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	63 gene(s)	inside rSNPs	diseases
2	nsv428635	chr15:40274500-40436293	Enhancers Flanking Active TSS Weak transcription Active TSS Strong transcription Bivalent Enhancer Genic enhancers 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 target site	29 gene(s)	inside rSNPs	diseases
3	esv3445856	chr15:40364981-40365279	Weak transcription Flanking Bivalent TSS/Enh Enhancers Bivalent Enhancer Flanking Active TSS Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:68 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:40346000-40367400	Weak transcription	K562	blood
2	chr15:40346200-40372800	Weak transcription	Fetal Kidney	kidney
3	chr15:40348600-40365800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
4	chr15:40348800-40365400	Weak transcription	Primary hematopoietic stem cells	blood
5	chr15:40357600-40365800	Weak transcription	Primary T cells from cord blood	blood
6	chr15:40359000-40368000	Weak transcription	Ovary	ovary
7	chr15:40359800-40366000	Enhancers	Fetal Thymus	thymus
8	chr15:40361800-40365800	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
9	chr15:40361800-40368400	Weak transcription	HMEC	breast
10	chr15:40362200-40365800	Weak transcription	Primary B cells from cord blood	blood
11	chr15:40362200-40367600	Weak transcription	HUES64 Cell Line	embryonic stem cell
12	chr15:40362200-40367600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
13	chr15:40362200-40368800	Weak transcription	Osteobl	bone
14	chr15:40362200-40372600	Weak transcription	Small Intestine	intestine
15	chr15:40362200-40373000	Weak transcription	Sigmoid Colon	Sigmoid Colon
16	chr15:40362200-40373600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
17	chr15:40362400-40367400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
18	chr15:40362400-40367600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
19	chr15:40362400-40368000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
20	chr15:40362400-40369200	Weak transcription	H1 Cell Line	embryonic stem cell
21	chr15:40362400-40372800	Weak transcription	Stomach Smooth Muscle	stomach
22	chr15:40362400-40374200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
23	chr15:40362600-40367200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
24	chr15:40362600-40367600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
25	chr15:40362600-40367600	Weak transcription	HUES6 Cell Line	embryonic stem cell
26	chr15:40362600-40367600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
27	chr15:40362600-40367600	Weak transcription	Spleen	Spleen
28	chr15:40362600-40367600	Weak transcription	A549	lung
29	chr15:40362600-40370800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
30	chr15:40362600-40373800	Weak transcription	Aorta	Aorta
31	chr15:40362800-40365200	Weak transcription	Dnd41	blood
32	chr15:40362800-40365800	Weak transcription	Primary B cells from peripheral blood	blood
33	chr15:40362800-40367400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
34	chr15:40362800-40367600	Weak transcription	Hela-S3	cervix
35	chr15:40362800-40372400	Weak transcription	GM12878-XiMat	blood
36	chr15:40363000-40367400	Weak transcription	HepG2	liver
37	chr15:40364200-40365200	Bivalent Enhancer	Fetal Muscle Trunk	muscle
38	chr15:40364400-40365200	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
39	chr15:40364400-40365200	Bivalent Enhancer	Fetal Muscle Leg	muscle
40	chr15:40364400-40365200	Enhancers	Placenta	Placenta
41	chr15:40364400-40365200	Enhancers	Rectal Mucosa Donor 29	rectum
42	chr15:40364400-40365200	Enhancers	Right Atrium	heart
43	chr15:40364400-40365200	Enhancers	Right Ventricle	heart
44	chr15:40364400-40365200	Enhancers	Skeletal Muscle Male	skeletal muscle
45	chr15:40364400-40365200	Enhancers	HUVEC	blood vessel
46	chr15:40364400-40365600	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
47	chr15:40364400-40365600	Enhancers	Fetal Heart	heart
48	chr15:40364600-40365200	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
49	chr15:40364600-40366200	Flanking Active TSS	Thymus	Thymus
50	chr15:40364600-40373000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain

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