Variant report

Variant	rs9399534
Chromosome Location	chr6:145491119-145491120
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 16 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:11)

rs_ID	r²[population]
rs12175026	0.82[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs2328636	0.82[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs56361215	0.82[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs7740679	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7757490	0.82[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs9376901	0.82[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs9386102	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9386103	0.82[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs9390281	0.80[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9390282	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9390283	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1016747	chr6:144917411-145599874	Flanking Active TSS Enhancers ZNF genes & repeats Strong transcription Weak transcription Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
2	nsv1022965	chr6:145374851-145635385	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS	Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
3	nsv830834	chr6:145392073-145556294	Enhancers Flanking Active TSS Active TSS Weak transcription ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS	Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
4	nsv886743	chr6:145433861-145528057	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Bivalent/Poised TSS Active TSS	Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
5	nsv886744	chr6:145452401-145528057	Enhancers ZNF genes & repeats Weak transcription Flanking Active TSS Bivalent/Poised TSS Active TSS	Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:18 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:145489800-145491400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
2	chr6:145490400-145491600	Enhancers	iPS-15b Cell Line	embryonic stem cell
3	chr6:145490400-145493000	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
4	chr6:145490800-145491200	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
5	chr6:145490800-145491200	Enhancers	HUES48 Cell Line	embryonic stem cell
6	chr6:145490800-145491400	Enhancers	H9 Cell Line	embryonic stem cell
7	chr6:145490800-145491600	Enhancers	iPS-20b Cell Line	embryonic stem cell
8	chr6:145490800-145492800	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
9	chr6:145491000-145491600	Enhancers	ES-I3 Cell Line	embryonic stem cell
10	chr6:145491000-145491600	Enhancers	HUES6 Cell Line	embryonic stem cell
11	chr6:145491000-145491800	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
12	chr6:145491000-145491800	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
13	chr6:145491000-145491800	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
14	chr6:145491000-145492000	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
15	chr6:145491000-145492000	Enhancers	iPS-18 Cell Line	embryonic stem cell
16	chr6:145491000-145492200	Enhancers	H1 Cell Line	embryonic stem cell
17	chr6:145491000-145492200	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
18	chr6:145491000-145492200	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell

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dbSNP/dbVar ID: rs12345 /nsv7879
a single nucleotide as 0-based coordinates: chr1:12345
chromosomal regions: chr1:12345-34567

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