Variant report

Variant	rs58258185
Chromosome Location	chr6:28733724-28733725
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:28731767..28734753-chr6:28735144..28738101,4	K562	blood:
2	chr6:28731867..28735071-chr6:28750775..28753093,3	K562	blood:
3	chr6:28686780..28689583-chr6:28731850..28734136,2	K562	blood:
4	chr6:28733597..28735281-chr6:28802392..28805024,2	K562	blood:
5	chr6:28733571..28736534-chr6:28751232..28752788,2	K562	blood:

Variant related genes	Relation type
ENSG00000235559	Chromatin interaction

Extended variants
information (count: 62 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:61)

rs_ID	r²[population]
rs1233614	1.00[ASN][1000 genomes]
rs17280797	0.80[AMR][1000 genomes]
rs17280818	0.80[AMR][1000 genomes]
rs17281186	0.80[AMR][1000 genomes]
rs17346574	0.80[AMR][1000 genomes]
rs2754761	0.95[AFR][1000 genomes]
rs2754762	0.95[AFR][1000 genomes]
rs2754765	0.84[AFR][1000 genomes]
rs2765222	0.84[AFR][1000 genomes]
rs2765223	0.95[AFR][1000 genomes]
rs3999045	0.97[AFR][1000 genomes];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs55641015	0.90[AMR][1000 genomes]
rs55659253	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55764335	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55891766	0.80[AMR][1000 genomes]
rs56003969	0.90[AMR][1000 genomes]
rs56030816	0.95[AFR][1000 genomes]
rs56098960	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56165011	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56296645	0.90[AMR][1000 genomes]
rs56374518	0.95[AFR][1000 genomes]
rs56384403	1.00[AMR][1000 genomes]
rs57170714	0.85[AMR][1000 genomes]
rs57693980	0.90[AMR][1000 genomes]
rs57748269	0.90[AMR][1000 genomes]
rs57791058	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs57965355	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs58238888	1.00[AMR][1000 genomes]
rs59233561	0.90[AMR][1000 genomes]
rs59475656	0.90[AMR][1000 genomes]
rs59959723	0.80[AMR][1000 genomes]
rs60252686	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs60311527	1.00[AMR][1000 genomes]
rs61094745	0.80[AMR][1000 genomes]
rs61208746	1.00[AMR][1000 genomes]
rs61703239	0.90[AMR][1000 genomes]
rs6901325	0.85[AMR][1000 genomes]
rs6905871	0.85[AMR][1000 genomes]
rs6906105	0.85[AMR][1000 genomes]
rs6906506	0.85[AMR][1000 genomes]
rs6909960	1.00[AMR][1000 genomes]
rs6916286	0.95[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6923795	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6938988	0.95[AFR][1000 genomes]
rs6939948	0.95[AFR][1000 genomes]
rs7738101	0.85[AMR][1000 genomes]
rs7742889	0.90[AMR][1000 genomes]
rs7748319	0.95[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs7751451	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7751884	1.00[AMR][1000 genomes]
rs7754365	0.85[AMR][1000 genomes]
rs7758798	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7760656	0.80[AMR][1000 genomes]
rs7765829	0.80[AMR][1000 genomes]
rs7766599	0.80[AMR][1000 genomes]
rs7772111	1.00[AMR][1000 genomes]
rs7772682	0.95[AMR][1000 genomes]
rs9257182	0.98[ASN][1000 genomes]
rs9688414	1.00[AMR][1000 genomes]
rs9767343	0.91[AMR][1000 genomes]
rs9767359	1.00[AMR][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv534089	chr6:28636972-28841640	Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Active TSS Flanking Active TSS Enhancers Weak transcription ZNF genes & repeats Transcr. at gene 5' and 3' Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	43 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:25 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:28731400-28733800	Active TSS	A549	lung
2	chr6:28731800-28734400	Bivalent/Poised TSS	ES-I3 Cell Line	embryonic stem cell
3	chr6:28732000-28734600	Flanking Bivalent TSS/Enh	iPS-18 Cell Line	embryonic stem cell
4	chr6:28732800-28734200	Weak transcription	K562	blood
5	chr6:28732800-28734400	Flanking Bivalent TSS/Enh	H1 Cell Line	embryonic stem cell
6	chr6:28733000-28734000	Bivalent/Poised TSS	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
7	chr6:28733200-28733800	Flanking Bivalent TSS/Enh	HUES6 Cell Line	embryonic stem cell
8	chr6:28733200-28733800	Flanking Bivalent TSS/Enh	iPS DF 19.11 Cell Line	embryonic stem cell
9	chr6:28733200-28733800	Bivalent Enhancer	Breast Myoepithelial Primary Cells	Breast
10	chr6:28733400-28733800	Flanking Bivalent TSS/Enh	HUES48 Cell Line	embryonic stem cell
11	chr6:28733400-28733800	Flanking Bivalent TSS/Enh	iPS-15b Cell Line	embryonic stem cell
12	chr6:28733400-28733800	Bivalent Enhancer	Cortex derived primary cultured neurospheres	brain
13	chr6:28733400-28733800	Bivalent Enhancer	Foreskin Melanocyte Primary Cells skin03	Skin
14	chr6:28733400-28733800	Flanking Bivalent TSS/Enh	Fetal Adrenal Gland	Adrenal Gland
15	chr6:28733400-28733800	Flanking Bivalent TSS/Enh	Placenta	Placenta
16	chr6:28733400-28734000	Flanking Bivalent TSS/Enh	iPS-20b Cell Line	embryonic stem cell
17	chr6:28733400-28734400	Active TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
18	chr6:28733600-28733800	Bivalent/Poised TSS	H9 Cell Line	embryonic stem cell
19	chr6:28733600-28733800	Flanking Bivalent TSS/Enh	HUES64 Cell Line	embryonic stem cell
20	chr6:28733600-28733800	Bivalent Enhancer	HepG2	liver
21	chr6:28733600-28734000	Flanking Bivalent TSS/Enh	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
22	chr6:28733600-28734000	Bivalent Enhancer	Ganglion Eminence derived primary cultured neurospheres	brain
23	chr6:28733600-28734200	Bivalent/Poised TSS	ES-WA7 Cell Line	embryonic stem cell
24	chr6:28733600-28734400	Bivalent Enhancer	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
25	chr6:28733600-28740800	Bivalent Enhancer	ES-UCSF4 Cell Line	embryonic stem cell

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