Variant report

Variant	rs73288240
Chromosome Location	chr17:18081213-18081214
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr17:18072017..18074280-chr17:18080893..18082643,2	K562	blood:
2	chr17:18080952..18083841-chr17:18091847..18093400,2	MCF-7	breast:
3	chr17:18079758..18083716-chr17:18084697..18088555,8	K562	blood:
4	chr17:18080216..18082835-chr17:18097056..18098956,2	MCF-7	breast:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-FLII-1	chr17:18079879-18081679	ENSG00000246628

Variant related genes	Relation type
ENSG00000266677	Chromatin interaction
ENSG00000091542	Chromatin interaction

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

rSNPs within LD-proxies of this variant (count:13)

rs_ID	r²[population]
rs16960959	0.83[AMR][1000 genomes]
rs57706516	1.00[AMR][1000 genomes]
rs7217776	1.00[AMR][1000 genomes]
rs73288238	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73288245	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73288249	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73288251	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73288261	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73288262	1.00[AMR][1000 genomes]
rs73288277	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73289914	1.00[AMR][1000 genomes]
rs73302997	1.00[AMR][1000 genomes]
rs73304808	0.83[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:10 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv531183	chr17:17571035-18205309	Genic enhancers Weak transcription Enhancers Strong transcription Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	123 gene(s)	inside rSNPs	diseases
2	nsv916653	chr17:17651916-18454952	Enhancers Strong transcription Active TSS Genic enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	144 gene(s)	inside rSNPs	diseases
3	nsv533142	chr17:17691726-18236686	Active TSS Flanking Active TSS Enhancers Strong transcription Weak transcription Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	116 gene(s)	inside rSNPs	diseases
4	nsv482491	chr17:17959577-18153920	Enhancers Genic enhancers Flanking Active TSS Active TSS Weak transcription Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	38 gene(s)	inside rSNPs	diseases
5	nsv1061162	chr17:17978838-18259234	Flanking Active TSS Weak transcription Genic enhancers Active TSS Enhancers Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	47 gene(s)	inside rSNPs	diseases
6	nsv492305	chr17:17980441-18424702	Flanking Active TSS Enhancers Strong transcription Transcr. at gene 5' and 3' Weak transcription Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	68 gene(s)	inside rSNPs	diseases
7	nsv907770	chr17:18003845-18098018	Active TSS Flanking Active TSS Weak transcription Enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Genic enhancers Strong transcription Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	29 gene(s)	inside rSNPs	diseases
8	nsv907771	chr17:18013560-18098018	Weak transcription Enhancers Genic enhancers Strong transcription Flanking Active TSS Transcr. at gene 5' and 3' Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	26 gene(s)	inside rSNPs	diseases
9	nsv907772	chr17:18030524-18098018	Flanking Active TSS Active TSS Weak transcription Enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Strong transcription Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	25 gene(s)	inside rSNPs	diseases
10	nsv510702	chr17:18037676-18116801	Enhancers Strong transcription Genic enhancers Transcr. at gene 5' and 3' Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	24 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:39 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr17:18062000-18085600	Weak transcription	Brain Angular Gyrus	brain
2	chr17:18062200-18085000	Weak transcription	Right Atrium	heart
3	chr17:18064800-18085400	Weak transcription	Brain Inferior Temporal Lobe	brain
4	chr17:18071200-18084800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
5	chr17:18071800-18082000	Weak transcription	Fetal Intestine Small	intestine
6	chr17:18072400-18085400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
7	chr17:18072800-18085000	Weak transcription	Stomach Smooth Muscle	stomach
8	chr17:18075600-18085400	Weak transcription	Brain Germinal Matrix	brain
9	chr17:18075800-18084400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
10	chr17:18075800-18085200	Weak transcription	Right Ventricle	heart
11	chr17:18076000-18085400	Weak transcription	Esophagus	oesophagus
12	chr17:18076000-18086000	Weak transcription	Ovary	ovary
13	chr17:18076200-18084600	Weak transcription	Fetal Stomach	stomach
14	chr17:18076600-18082400	Weak transcription	Rectal Mucosa Donor 31	rectum
15	chr17:18076600-18085000	Weak transcription	Pancreas	Pancrea
16	chr17:18076800-18083200	Weak transcription	K562	blood
17	chr17:18076800-18084400	Weak transcription	Fetal Muscle Leg	muscle
18	chr17:18077400-18085400	Weak transcription	Spleen	Spleen
19	chr17:18077800-18085200	Weak transcription	Duodenum Mucosa	Duodenum
20	chr17:18078200-18082400	Weak transcription	Colonic Mucosa	Colon
21	chr17:18079200-18082400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
22	chr17:18079200-18083400	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
23	chr17:18079200-18084400	Weak transcription	Fetal Muscle Trunk	muscle
24	chr17:18079200-18085400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
25	chr17:18079400-18085000	Weak transcription	Skeletal Muscle Male	skeletal muscle
26	chr17:18079800-18084400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
27	chr17:18079800-18084400	Weak transcription	GM12878-XiMat	blood
28	chr17:18079800-18085200	Weak transcription	Primary hematopoietic stem cells short term culture	blood
29	chr17:18080000-18085400	Weak transcription	Primary neutrophils fromperipheralblood	blood
30	chr17:18080200-18083400	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
31	chr17:18080200-18085400	Weak transcription	Primary monocytes fromperipheralblood	blood
32	chr17:18080200-18085400	Weak transcription	Primary B cells from peripheral blood	blood
33	chr17:18080200-18085400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
34	chr17:18080400-18084600	Weak transcription	Skeletal Muscle Female	skeletal muscle
35	chr17:18080400-18085400	Weak transcription	Monocytes-CD14+_RO01746	blood
36	chr17:18081000-18081400	Enhancers	Cortex derived primary cultured neurospheres	brain
37	chr17:18081200-18081400	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
38	chr17:18081200-18082400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
39	chr17:18081200-18084800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain

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