Variant report

Variant	rs7173180
Chromosome Location	chr15:55917066-55917067
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 21 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:12)

rs_ID	r²[population]
rs11639131	0.92[AFR][1000 genomes];0.90[ASN][1000 genomes]
rs12595448	0.90[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12903208	0.89[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1550326	0.83[ASN][1000 genomes]
rs1657954	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1659302	0.89[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16976436	1.00[YRI][hapmap]
rs680556	0.83[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7164393	1.00[YRI][hapmap]
rs7165971	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs766865	0.99[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9920740	0.93[AFR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:9 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv917323	chr15:55290499-56041334	Genic enhancers Active TSS ZNF genes & repeats Weak transcription Strong transcription Enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	57 gene(s)	inside rSNPs	diseases
2	nsv1043789	chr15:55400872-56092454	Weak transcription Enhancers Genic enhancers Strong transcription Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	55 gene(s)	inside rSNPs	diseases
3	nsv1040917	chr15:55562940-55943942	Flanking Active TSS Weak transcription Strong transcription Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Enhancers Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	38 gene(s)	inside rSNPs	diseases
4	nsv948522	chr15:55639867-56032099	Weak transcription Strong transcription Flanking Active TSS Genic enhancers Enhancers Active TSS Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	31 gene(s)	inside rSNPs	diseases
5	nsv1041635	chr15:55658171-55943942	Enhancers Weak transcription ZNF genes & repeats Bivalent/Poised TSS Flanking Active TSS Active TSS Strong transcription Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
6	nsv457157	chr15:55722213-56255774	Flanking Active TSS Enhancers Active TSS Strong transcription Weak transcription Genic enhancers Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	22 gene(s)	inside rSNPs	diseases
7	nsv569539	chr15:55722213-56255774	Enhancers Weak transcription Genic enhancers Flanking Active TSS Strong transcription Active TSS Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	22 gene(s)	inside rSNPs	diseases
8	nsv1049774	chr15:55759573-56044600	Weak transcription Strong transcription Active TSS Bivalent/Poised TSS Enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases
9	nsv569540	chr15:55866065-55950082	Strong transcription Weak transcription Bivalent Enhancer Enhancers Genic enhancers Flanking Active TSS Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:41 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:55881800-55920000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr15:55902200-55942200	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
3	chr15:55904200-55927000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
4	chr15:55904600-55929400	Weak transcription	Placenta Amnion	Placenta Amnion
5	chr15:55905200-55920200	Weak transcription	HepG2	liver
6	chr15:55906400-55920000	Weak transcription	Skeletal Muscle Female	skeletal muscle
7	chr15:55906800-55922800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
8	chr15:55907000-55919800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
9	chr15:55907200-55919400	Weak transcription	Placenta	Placenta
10	chr15:55908600-55945000	Weak transcription	Left Ventricle	heart
11	chr15:55908800-55919800	Weak transcription	HUVEC	blood vessel
12	chr15:55908800-55938800	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
13	chr15:55909800-55920800	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
14	chr15:55910000-55920200	Weak transcription	Psoas Muscle	Psoas
15	chr15:55910200-55928600	Weak transcription	Stomach Smooth Muscle	stomach
16	chr15:55910400-55930800	Weak transcription	Fetal Lung	lung
17	chr15:55910600-55922800	Weak transcription	Cortex derived primary cultured neurospheres	brain
18	chr15:55910800-55927000	Weak transcription	Fetal Muscle Trunk	muscle
19	chr15:55911000-55921400	Strong transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
20	chr15:55911000-55931000	Weak transcription	Duodenum Smooth Muscle	Duodenum
21	chr15:55911800-55977000	Weak transcription	Fetal Intestine Small	intestine
22	chr15:55912200-55920600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
23	chr15:55912200-55929800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
24	chr15:55912400-55919800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
25	chr15:55912400-55944000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
26	chr15:55912600-55919400	Weak transcription	A549	lung
27	chr15:55912600-55920000	Weak transcription	Primary hematopoietic stem cells	blood
28	chr15:55912600-55920000	Weak transcription	Fetal Muscle Leg	muscle
29	chr15:55912600-55920200	Weak transcription	Lung	lung
30	chr15:55914600-55920000	Weak transcription	Hela-S3	cervix
31	chr15:55914800-55920000	Weak transcription	HSMM	muscle
32	chr15:55915200-55920200	Weak transcription	Fetal Intestine Large	intestine
33	chr15:55916000-55918600	Strong transcription	HUES6 Cell Line	embryonic stem cell
34	chr15:55916000-55938200	Strong transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
35	chr15:55916200-55920000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
36	chr15:55916200-55928200	Strong transcription	HUES64 Cell Line	embryonic stem cell
37	chr15:55916400-55918600	Strong transcription	Ovary	ovary
38	chr15:55916400-55919200	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
39	chr15:55916800-55919800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
40	chr15:55917000-55917800	Weak transcription	Fetal Stomach	stomach
41	chr15:55917000-55922600	Weak transcription	Fetal Kidney	kidney

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