Variant report

Variant	rs28660596
Chromosome Location	chr15:93348924-93348925
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:13)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:13 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr15:93345748..93348940-chr15:93360001..93364248,4	K562	blood:
2	chr15:93337836..93370220-chr15:93420085..93452591,332	K562	blood:
3	chr15:93344712..93371031-chr15:93418700..93467618,365	MCF-7	breast:
4	chr15:93197791..93200086-chr15:93347321..93349067,2	MCF-7	breast:
5	chr15:93345609..93348948-chr15:93474005..93477394,3	K562	blood:
6	chr15:93345383..93371459-chr15:93416796..93454653,318	MCF-7	breast:
7	chr15:93347140..93350047-chr15:93463095..93464830,2	K562	blood:
8	chr15:93346853..93348985-chr15:93466293..93469461,3	K562	blood:
9	chr15:93347373..93348985-chr15:93466293..93468801,2	K562	blood:
10	chr15:93347226..93350141-chr15:93462968..93465327,2	MCF-7	breast:
11	chr15:93348164..93350454-chr16:63561764..63563284,2	K562	blood:
12	chr15:93333327..93367027-chr15:93419774..93462750,363	K562	blood:
13	chr15:93347590..93349786-chr15:93410153..93413692,3	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000185442	Chromatin interaction
ENSG00000264173	Chromatin interaction
ENSG00000173575	Chromatin interaction
ENSG00000272888	Chromatin interaction

Extended variants
information (count: 13 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:7)

rs_ID	r²[population]
rs12101782	0.85[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs28579551	0.87[EUR][1000 genomes]
rs28685637	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28754851	0.87[EUR][1000 genomes]
rs28805897	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28881565	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs7181825	1.00[AMR][1000 genomes];0.87[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	nsv904499	chr15:92914795-93472582	Bivalent Enhancer Flanking Active TSS Genic enhancers Strong transcription Active TSS Transcr. at gene 5' and 3' Weak transcription Enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	163 gene(s)	inside rSNPs	diseases
2	nsv948738	chr15:93070742-93728147	Strong transcription Weak transcription Flanking Active TSS Enhancers Genic enhancers Active TSS Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	169 gene(s)	inside rSNPs	diseases
3	nsv1049490	chr15:93134405-93591660	Enhancers Genic enhancers Weak transcription Strong transcription Active TSS ZNF genes & repeats Flanking Active TSS Bivalent Enhancer 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	151 gene(s)	inside rSNPs	diseases
4	nsv1042292	chr15:93286333-93374887	Flanking Active TSS Weak transcription Active TSS Enhancers ZNF genes & repeats Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	50 gene(s)	inside rSNPs	diseases
5	nsv984199	chr15:93288362-93381522	Enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	55 gene(s)	inside rSNPs	diseases
6	nsv530846	chr15:93323949-94030462	Active TSS Strong transcription Flanking Active TSS Enhancers Weak transcription Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	153 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:97 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:93325400-93351000	Weak transcription	Primary T cells from cord blood	blood
2	chr15:93341000-93350800	Weak transcription	Thymus	Thymus
3	chr15:93341000-93351000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
4	chr15:93341000-93351200	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
5	chr15:93341000-93351200	Weak transcription	Brain Hippocampus Middle	brain
6	chr15:93341000-93351200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
7	chr15:93341000-93351400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
8	chr15:93341000-93351400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
9	chr15:93344600-93349000	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
10	chr15:93344600-93351000	Enhancers	Primary monocytes fromperipheralblood	blood
11	chr15:93344600-93351200	Enhancers	Placenta	Placenta
12	chr15:93344800-93349000	Enhancers	Primary hematopoietic stem cells short term culture	blood
13	chr15:93345200-93350200	Weak transcription	Fetal Muscle Trunk	muscle
14	chr15:93345200-93351200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
15	chr15:93345200-93351200	Weak transcription	Fetal Stomach	stomach
16	chr15:93345200-93351200	Weak transcription	Left Ventricle	heart
17	chr15:93345200-93351200	Weak transcription	Sigmoid Colon	Sigmoid Colon
18	chr15:93345600-93350200	Weak transcription	Colonic Mucosa	Colon
19	chr15:93345600-93351000	Weak transcription	HUES6 Cell Line	embryonic stem cell
20	chr15:93345600-93351200	Weak transcription	Esophagus	oesophagus
21	chr15:93345600-93351800	Weak transcription	Small Intestine	intestine
22	chr15:93345800-93351200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
23	chr15:93345800-93351200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
24	chr15:93345800-93351800	Weak transcription	Ovary	ovary
25	chr15:93345800-93352000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
26	chr15:93346000-93351400	Weak transcription	Aorta	Aorta
27	chr15:93346800-93351000	Weak transcription	Primary B cells from peripheral blood	blood
28	chr15:93347200-93351000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
29	chr15:93347400-93349000	Enhancers	Liver	Liver
30	chr15:93347400-93350600	Weak transcription	Primary T cells fromperipheralblood	blood
31	chr15:93347400-93351000	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
32	chr15:93347400-93351000	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
33	chr15:93347600-93350200	Weak transcription	Fetal Thymus	thymus
34	chr15:93347600-93350800	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
35	chr15:93347600-93351000	Weak transcription	Primary T helper cells fromperipheralblood	blood
36	chr15:93347600-93351000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
37	chr15:93347800-93349000	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
38	chr15:93347800-93349600	Weak transcription	GM12878-XiMat	blood
39	chr15:93347800-93350800	Weak transcription	Primary T helper cells PMA-I stimulated	--
40	chr15:93347800-93351000	Weak transcription	Brain Inferior Temporal Lobe	brain
41	chr15:93347800-93351000	Weak transcription	Duodenum Smooth Muscle	Duodenum
42	chr15:93347800-93351000	Weak transcription	Rectal Mucosa Donor 29	rectum
43	chr15:93347800-93351000	Weak transcription	Rectal Mucosa Donor 31	rectum
44	chr15:93347800-93351000	Weak transcription	Rectal Smooth Muscle	rectum
45	chr15:93347800-93351200	Weak transcription	H9 Cell Line	embryonic stem cell
46	chr15:93347800-93351200	Weak transcription	Brain Anterior Caudate	brain
47	chr15:93347800-93351200	Weak transcription	Brain Substantia Nigra	brain
48	chr15:93347800-93351200	Weak transcription	Colon Smooth Muscle	Colon
49	chr15:93347800-93351200	Weak transcription	Duodenum Mucosa	Duodenum
50	chr15:93347800-93351200	Weak transcription	Stomach Smooth Muscle	stomach

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