Variant report

Variant	rs529941
Chromosome Location	chr9:27165952-27165953
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr9:27033573..27034169-chr9:27165385..27166023,2	MCF-7	breast:

Extended variants
information (count: 34 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:27)

rs_ID	r²[population]
rs16911095	1.00[EUR][1000 genomes]
rs1762074	1.00[EUR][1000 genomes]
rs2782414	1.00[EUR][1000 genomes]
rs2782417	1.00[EUR][1000 genomes]
rs2782418	1.00[EUR][1000 genomes]
rs2782429	1.00[EUR][1000 genomes]
rs2782431	1.00[EUR][1000 genomes]
rs482271	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs581470	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs596496	1.00[EUR][1000 genomes]
rs602255	1.00[EUR][1000 genomes]
rs610646	1.00[EUR][1000 genomes]
rs613009	1.00[EUR][1000 genomes]
rs615316	1.00[EUR][1000 genomes]
rs615636	1.00[EUR][1000 genomes]
rs629138	1.00[EUR][1000 genomes]
rs629582	1.00[EUR][1000 genomes]
rs653773	1.00[EUR][1000 genomes]
rs672470	1.00[EUR][1000 genomes]
rs674459	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7390769	1.00[EUR][1000 genomes]
rs7390770	1.00[EUR][1000 genomes]
rs7390781	1.00[EUR][1000 genomes]
rs7390786	1.00[EUR][1000 genomes]
rs7390795	1.00[EUR][1000 genomes]
rs7390806	1.00[EUR][1000 genomes]
rs7390815	1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv892862	chr9:26956663-27190655	Enhancers ZNF genes & repeats Weak transcription Active TSS Flanking Active TSS Strong transcription Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	11 gene(s)	inside rSNPs	diseases
2	nsv1016733	chr9:27073650-27264576	Enhancers Weak transcription Genic enhancers Strong transcription Bivalent Enhancer Active TSS Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
3	nsv1022313	chr9:27083369-27250505	Enhancers Weak transcription Active TSS ZNF genes & repeats Strong transcription Genic enhancers Bivalent Enhancer Flanking Active TSS Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
4	nsv1017802	chr9:27088160-27262682	Weak transcription Flanking Active TSS Enhancers Active TSS Genic enhancers Strong transcription ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
5	nsv1019104	chr9:27088160-27358206	Enhancers Weak transcription Genic enhancers Active TSS Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
6	nsv892863	chr9:27138898-27170934	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Strong transcription Bivalent Enhancer Genic enhancers	Chromatin interactive region	n/a	inside rSNPs	diseases
7	nsv6512	chr9:27155677-27200455	Weak transcription Enhancers Strong transcription ZNF genes & repeats Bivalent Enhancer Genic enhancers Flanking Active TSS Active TSS	TF binding region Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:36 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:27151000-27172800	Weak transcription	Left Ventricle	heart
2	chr9:27151000-27229200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
3	chr9:27152000-27174600	Weak transcription	Fetal Muscle Leg	muscle
4	chr9:27152400-27181600	Weak transcription	Adipose Nuclei	Adipose
5	chr9:27158200-27183600	Weak transcription	Lung	lung
6	chr9:27162400-27168600	Weak transcription	HSMMtube	muscle
7	chr9:27162600-27172600	Weak transcription	HUVEC	blood vessel
8	chr9:27162800-27177800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
9	chr9:27163000-27178000	Weak transcription	Fetal Muscle Trunk	muscle
10	chr9:27164400-27175400	Weak transcription	Fetal Intestine Small	intestine
11	chr9:27164600-27166000	Enhancers	Cortex derived primary cultured neurospheres	brain
12	chr9:27164600-27166200	Enhancers	Fetal Stomach	stomach
13	chr9:27164800-27166000	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
14	chr9:27164800-27166000	Enhancers	Colon Smooth Muscle	Colon
15	chr9:27164800-27166200	Enhancers	iPS-15b Cell Line	embryonic stem cell
16	chr9:27165000-27166000	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
17	chr9:27165000-27166000	Enhancers	Stomach Smooth Muscle	stomach
18	chr9:27165000-27166200	Enhancers	Placenta	Placenta
19	chr9:27165200-27166200	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
20	chr9:27165200-27166200	Genic enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
21	chr9:27165200-27166200	Enhancers	HUES6 Cell Line	embryonic stem cell
22	chr9:27165400-27166000	Enhancers	H1 Cell Line	embryonic stem cell
23	chr9:27165400-27166200	Enhancers	ES-I3 Cell Line	embryonic stem cell
24	chr9:27165400-27166200	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
25	chr9:27165400-27198200	Weak transcription	Ovary	ovary
26	chr9:27165400-27219200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
27	chr9:27165600-27166000	Enhancers	HUES48 Cell Line	embryonic stem cell
28	chr9:27165600-27166000	Enhancers	Breast Myoepithelial Primary Cells	Breast
29	chr9:27165600-27166000	Enhancers	Placenta Amnion	Placenta Amnion
30	chr9:27165600-27166200	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
31	chr9:27165600-27166200	Genic enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
32	chr9:27165800-27166000	Enhancers	HUES64 Cell Line	embryonic stem cell
33	chr9:27165800-27166000	Enhancers	Spleen	Spleen
34	chr9:27165800-27166800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
35	chr9:27165800-27169200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
36	chr9:27165800-27181600	Weak transcription	Fetal Lung	lung

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