Variant report

Variant	rs58955860
Chromosome Location	chr13:51819267-51819268
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr13:51818423..51819959-chr13:51823241..51825450,2	MCF-7	breast:

Extended variants
information (count: 56 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:54)

rs_ID	r²[population]
rs11838593	1.00[EUR][1000 genomes]
rs11841027	1.00[EUR][1000 genomes]
rs11841154	1.00[EUR][1000 genomes]
rs11843842	1.00[EUR][1000 genomes]
rs1475378	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs57011760	1.00[EUR][1000 genomes]
rs57325570	1.00[EUR][1000 genomes]
rs57546351	1.00[EUR][1000 genomes]
rs57856090	1.00[EUR][1000 genomes]
rs57873646	1.00[EUR][1000 genomes]
rs58004754	1.00[EUR][1000 genomes]
rs58286739	1.00[EUR][1000 genomes]
rs58791839	1.00[EUR][1000 genomes]
rs59146135	1.00[EUR][1000 genomes]
rs59439755	1.00[EUR][1000 genomes]
rs59488627	1.00[EUR][1000 genomes]
rs59816449	1.00[EUR][1000 genomes]
rs61016784	1.00[EUR][1000 genomes]
rs61041802	1.00[EUR][1000 genomes]
rs61075891	1.00[EUR][1000 genomes]
rs61520022	1.00[EUR][1000 genomes]
rs61539526	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7317441	1.00[EUR][1000 genomes]
rs7323479	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7323723	1.00[EUR][1000 genomes]
rs7324083	1.00[EUR][1000 genomes]
rs7333250	1.00[EUR][1000 genomes]
rs73488042	1.00[EUR][1000 genomes]
rs73488047	1.00[EUR][1000 genomes]
rs73488050	1.00[EUR][1000 genomes]
rs73488064	1.00[EUR][1000 genomes]
rs73488066	1.00[EUR][1000 genomes]
rs73488070	1.00[EUR][1000 genomes]
rs73488073	1.00[EUR][1000 genomes]
rs73488076	1.00[EUR][1000 genomes]
rs73488091	1.00[EUR][1000 genomes]
rs73488094	1.00[EUR][1000 genomes]
rs73488097	1.00[EUR][1000 genomes]
rs73490136	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73490138	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73490144	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73490160	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73490161	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73490165	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73490186	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73490189	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73490197	0.80[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73492203	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7994215	1.00[EUR][1000 genomes]
rs7997296	1.00[EUR][1000 genomes]
rs7997385	1.00[EUR][1000 genomes]
rs9316538	1.00[EUR][1000 genomes]
rs9596451	1.00[EUR][1000 genomes]
rs9596500	1.00[EUR][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	nsv832610	chr13:51636661-51822106	Bivalent/Poised TSS Enhancers Active TSS Weak transcription Flanking Active TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
2	nsv832611	chr13:51766472-51938314	Weak transcription Enhancers Bivalent Enhancer Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	13 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:51 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:51805200-51825600	Weak transcription	Aorta	Aorta
2	chr13:51808000-51821200	Enhancers	Brain Substantia Nigra	brain
3	chr13:51808400-51821400	Enhancers	Fetal Heart	heart
4	chr13:51808600-51820000	Weak transcription	Fetal Brain Female	brain
5	chr13:51810200-51820200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
6	chr13:51810400-51820000	Weak transcription	Fetal Brain Male	brain
7	chr13:51812600-51820600	Weak transcription	Right Ventricle	heart
8	chr13:51812600-51821000	Weak transcription	Spleen	Spleen
9	chr13:51813200-51822600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
10	chr13:51813600-51821200	Enhancers	Brain Cingulate Gyrus	brain
11	chr13:51814000-51820600	Enhancers	Breast Myoepithelial Primary Cells	Breast
12	chr13:51814200-51820200	Enhancers	Brain Anterior Caudate	brain
13	chr13:51815000-51821400	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
14	chr13:51815600-51821000	Weak transcription	Right Atrium	heart
15	chr13:51816200-51820600	Enhancers	Cortex derived primary cultured neurospheres	brain
16	chr13:51816200-51836600	Weak transcription	Adipose Nuclei	Adipose
17	chr13:51816400-51820200	Enhancers	H1 Cell Line	embryonic stem cell
18	chr13:51816800-51820200	Weak transcription	Fetal Lung	lung
19	chr13:51816800-51836000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
20	chr13:51817000-51821000	Enhancers	Brain Angular Gyrus	brain
21	chr13:51817400-51821200	Weak transcription	Duodenum Smooth Muscle	Duodenum
22	chr13:51817400-51827200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
23	chr13:51817600-51827200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
24	chr13:51817800-51827600	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
25	chr13:51818000-51819600	Genic enhancers	Stomach Smooth Muscle	stomach
26	chr13:51818000-51821200	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
27	chr13:51818200-51819600	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
28	chr13:51818200-51820200	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
29	chr13:51818200-51820200	Enhancers	Brain Germinal Matrix	brain
30	chr13:51818400-51819400	Weak transcription	Fetal Stomach	stomach
31	chr13:51818400-51820600	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
32	chr13:51818600-51820200	Weak transcription	Rectal Smooth Muscle	rectum
33	chr13:51818800-51820200	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
34	chr13:51818800-51820600	Enhancers	ES-I3 Cell Line	embryonic stem cell
35	chr13:51818800-51820600	Weak transcription	Fetal Muscle Trunk	muscle
36	chr13:51818800-51832800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
37	chr13:51819000-51819400	Weak transcription	Colon Smooth Muscle	Colon
38	chr13:51819000-51820000	Transcr. at gene 5' and 3'	iPS-20b Cell Line	embryonic stem cell
39	chr13:51819000-51820200	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
40	chr13:51819000-51820200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
41	chr13:51819000-51820600	Enhancers	H9 Cell Line	embryonic stem cell
42	chr13:51819000-51820600	Weak transcription	Left Ventricle	heart
43	chr13:51819000-51821000	Enhancers	Brain Hippocampus Middle	brain
44	chr13:51819200-51819400	Enhancers	HUES48 Cell Line	embryonic stem cell
45	chr13:51819200-51820200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
46	chr13:51819200-51820200	Weak transcription	Brain Inferior Temporal Lobe	brain
47	chr13:51819200-51820400	Enhancers	iPS-15b Cell Line	embryonic stem cell
48	chr13:51819200-51820600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
49	chr13:51819200-51821000	Enhancers	HUES6 Cell Line	embryonic stem cell
50	chr13:51819200-51821200	Enhancers	HUES64 Cell Line	embryonic stem cell

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