Variant report

Variant	rs3884530
Chromosome Location	chr13:39377837-39377838
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 15 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs7325406	1.00[EUR][1000 genomes]
rs7327183	1.00[EUR][1000 genomes]
rs7328965	1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7335056	1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7982333	1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7982933	1.00[EUR][1000 genomes]
rs7983560	0.97[AFR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7983965	0.99[AFR][1000 genomes];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9594296	0.90[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs9603431	0.86[AFR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9603432	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9603434	1.00[EUR][1000 genomes]
rs9805487	0.98[AFR][1000 genomes];0.96[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	nsv832585	chr13:39233307-39424375	Weak transcription Bivalent/Poised TSS Active TSS Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
2	esv2754118	chr13:39347702-40222644	Flanking Active TSS Enhancers Weak transcription ZNF genes & repeats Bivalent Enhancer Strong transcription Active TSS Flanking Bivalent TSS/Enh Genic enhancers 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

No data

Chromatin state (count:30 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:39369800-39379000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr13:39376000-39388800	Weak transcription	Gastric	stomach
3	chr13:39376600-39379600	Enhancers	H1 Cell Line	embryonic stem cell
4	chr13:39376600-39380600	Enhancers	HUES64 Cell Line	embryonic stem cell
5	chr13:39377000-39379200	Enhancers	iPS-15b Cell Line	embryonic stem cell
6	chr13:39377000-39380000	Enhancers	Cortex derived primary cultured neurospheres	brain
7	chr13:39377400-39378000	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
8	chr13:39377400-39378000	Enhancers	Fetal Brain Female	brain
9	chr13:39377400-39378200	Enhancers	H9 Cell Line	embryonic stem cell
10	chr13:39377400-39378200	Enhancers	HUES6 Cell Line	embryonic stem cell
11	chr13:39377400-39378400	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
12	chr13:39377400-39378400	Enhancers	Brain Germinal Matrix	brain
13	chr13:39377400-39379000	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
14	chr13:39377400-39379200	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
15	chr13:39377400-39379600	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
16	chr13:39377400-39379600	Enhancers	Brain Hippocampus Middle	brain
17	chr13:39377400-39379600	Enhancers	Brain Inferior Temporal Lobe	brain
18	chr13:39377400-39379800	Enhancers	ES-I3 Cell Line	embryonic stem cell
19	chr13:39377400-39379800	Enhancers	HUES48 Cell Line	embryonic stem cell
20	chr13:39377600-39378200	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
21	chr13:39377600-39378400	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
22	chr13:39377600-39378400	Flanking Active TSS	iPS-18 Cell Line	embryonic stem cell
23	chr13:39377600-39378400	Flanking Active TSS	iPS-20b Cell Line	embryonic stem cell
24	chr13:39377600-39379000	Enhancers	Fetal Kidney	kidney
25	chr13:39377600-39379200	Enhancers	Brain Substantia Nigra	brain
26	chr13:39377600-39379600	Enhancers	Brain Angular Gyrus	brain
27	chr13:39377600-39380400	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
28	chr13:39377800-39378000	Active TSS	Ganglion Eminence derived primary cultured neurospheres	brain
29	chr13:39377800-39378000	Enhancers	Brain Anterior Caudate	brain
30	chr13:39377800-39380400	Enhancers	HMEC	breast

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