Variant report

Variant	rs17723097
Chromosome Location	chr15:40362382-40362383
allele	A/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:11)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:11 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr15:40335759..40338053-chr15:40359943..40362529,2	MCF-7	breast:
2	chr15:40361575..40363326-chr15:40368696..40371846,3	MCF-7	breast:
3	chr15:40359476..40364618-chr15:40393648..40401523,12	MCF-7	breast:
4	chr15:40361732..40363412-chr15:40378165..40381154,2	MCF-7	breast:
5	chr15:40341022..40342774-chr15:40361463..40363081,2	MCF-7	breast:
6	chr15:40361924..40363832-chr15:40379205..40381986,2	MCF-7	breast:
7	chr15:40347622..40350963-chr15:40359226..40362584,4	MCF-7	breast:
8	chr15:40361459..40366979-chr15:40389781..40395512,5	MCF-7	breast:
9	chr15:40360380..40363301-chr15:40385509..40387691,4	MCF-7	breast:
10	chr15:40361484..40363622-chr15:40390334..40391984,2	K562	blood:
11	chr15:40355457..40358717-chr15:40360057..40366974,8	K562	blood:

No data

Variant related genes	Relation type
ENSG00000259409	Chromatin interaction
ENSG00000248508	Chromatin interaction
ENSG00000259584	Chromatin interaction
ENSG00000104081	Chromatin interaction

Extended variants
information (count: 9 )
Associated
traits (count: 1 )

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

rs_ID	r²[population]
rs10518679	1.00[CHB][hapmap]
rs12050884	1.00[CHB][hapmap]
rs12899662	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs12913170	0.89[CEU][hapmap];1.00[CHB][hapmap];0.80[EUR][1000 genomes]
rs67501946	0.96[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs72731416	0.89[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs72731420	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.84[ASN][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	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

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs17723097	SRP14-AS1	cis	lung	GTEx

Chromatin state (count:94 , 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	chr15:40358000-40362600	Enhancers	A549	lung
7	chr15:40358600-40362400	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
8	chr15:40358800-40362800	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
9	chr15:40359000-40362600	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
10	chr15:40359000-40368000	Weak transcription	Ovary	ovary
11	chr15:40359400-40362800	Enhancers	Liver	Liver
12	chr15:40359400-40364400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
13	chr15:40359800-40366000	Enhancers	Fetal Thymus	thymus
14	chr15:40360200-40362400	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
15	chr15:40360200-40362600	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
16	chr15:40360400-40362400	Enhancers	Brain Germinal Matrix	brain
17	chr15:40360400-40362600	Enhancers	ES-I3 Cell Line	embryonic stem cell
18	chr15:40360400-40362600	Enhancers	Duodenum Mucosa	Duodenum
19	chr15:40360400-40362800	Enhancers	Primary B cells from peripheral blood	blood
20	chr15:40360400-40362800	Enhancers	Fetal Muscle Leg	muscle
21	chr15:40360400-40362800	Enhancers	Lung	lung
22	chr15:40360400-40362800	Enhancers	Rectal Mucosa Donor 31	rectum
23	chr15:40360600-40362400	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
24	chr15:40360600-40362400	Enhancers	iPS-15b Cell Line	embryonic stem cell
25	chr15:40360600-40362400	Enhancers	iPS-20b Cell Line	embryonic stem cell
26	chr15:40360600-40362400	Enhancers	Brain Hippocampus Middle	brain
27	chr15:40360600-40362400	Enhancers	Stomach Smooth Muscle	stomach
28	chr15:40360600-40362400	Enhancers	HSMM	muscle
29	chr15:40360600-40362600	Enhancers	HUES6 Cell Line	embryonic stem cell
30	chr15:40360600-40362600	Enhancers	Fetal Heart	heart
31	chr15:40360600-40362800	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
32	chr15:40360600-40362800	Enhancers	Breast Myoepithelial Primary Cells	Breast
33	chr15:40360600-40362800	Enhancers	Stomach Mucosa	stomach
34	chr15:40360800-40362600	Enhancers	HUES48 Cell Line	embryonic stem cell
35	chr15:40360800-40362600	Enhancers	Adipose Nuclei	Adipose
36	chr15:40360800-40362800	Enhancers	Muscle Satellite Cultured Cells	--
37	chr15:40361000-40362400	Enhancers	H1 Cell Line	embryonic stem cell
38	chr15:40361000-40362400	Enhancers	Psoas Muscle	Psoas
39	chr15:40361000-40362400	Enhancers	Rectal Smooth Muscle	rectum
40	chr15:40361000-40362400	Enhancers	NHDF-Ad	bronchial
41	chr15:40361000-40362400	Enhancers	NHLF	lung
42	chr15:40361000-40362600	Enhancers	ES-WA7 Cell Line	embryonic stem cell
43	chr15:40361000-40362600	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
44	chr15:40361000-40362600	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
45	chr15:40361000-40362600	Enhancers	Brain Cingulate Gyrus	brain
46	chr15:40361000-40362600	Enhancers	Colonic Mucosa	Colon
47	chr15:40361000-40362600	Enhancers	Fetal Stomach	stomach
48	chr15:40361000-40362600	Enhancers	Left Ventricle	heart
49	chr15:40361000-40362600	Enhancers	Rectal Mucosa Donor 29	rectum
50	chr15:40361000-40362600	Enhancers	Spleen	Spleen

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