Variant report

Variant	rs58104924
Chromosome Location	chr6:28712008-28712009
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:28685695..28690739-chr6:28709794..28719692,17	K562	blood:
2	chr6:28187375..28189818-chr6:28709219..28712133,2	K562	blood:
3	chr6:28710816..28712847-chr6:28804095..28806646,2	K562	blood:
4	chr6:28711220..28714517-chr6:28890097..28893318,3	K562	blood:
5	chr6:28709763..28712235-chr6:28715610..28717205,2	K562	blood:
6	chr6:28706840..28708346-chr6:28709488..28712383,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000204713	Chromatin interaction

Extended variants
information (count: 58 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:57)

rs_ID	r²[population]
rs10498733	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1107160	0.83[ASN][1000 genomes]
rs1233582	0.93[ASN][1000 genomes]
rs169682	0.81[AMR][1000 genomes]
rs17280797	1.00[AFR][1000 genomes];0.88[AMR][1000 genomes];0.80[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs17280818	1.00[AFR][1000 genomes];0.88[AMR][1000 genomes];0.80[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs17281186	1.00[AFR][1000 genomes];0.88[AMR][1000 genomes];0.80[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs17346574	0.82[AFR][1000 genomes];0.88[AMR][1000 genomes];0.80[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs17398081	0.87[ASN][1000 genomes]
rs185982	0.81[AMR][1000 genomes]
rs1891757	0.97[AFR][1000 genomes];0.83[ASN][1000 genomes]
rs1936180	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs209189	0.87[AMR][1000 genomes]
rs209190	0.81[AMR][1000 genomes]
rs209192	0.81[AMR][1000 genomes]
rs209193	0.81[AMR][1000 genomes]
rs2754761	0.81[AMR][1000 genomes]
rs2754762	0.81[AMR][1000 genomes]
rs2754765	0.93[AMR][1000 genomes]
rs2765222	0.81[AMR][1000 genomes]
rs2765223	0.81[AMR][1000 genomes]
rs398795	0.81[AMR][1000 genomes]
rs453020	0.93[AMR][1000 genomes]
rs55641015	0.95[AFR][1000 genomes];0.87[ASN][1000 genomes]
rs55891766	1.00[AFR][1000 genomes];0.88[AMR][1000 genomes];0.80[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs56003969	0.92[AFR][1000 genomes];0.83[ASN][1000 genomes]
rs56110474	0.93[AMR][1000 genomes]
rs56296645	1.00[AFR][1000 genomes];0.83[ASN][1000 genomes]
rs56308612	0.81[AMR][1000 genomes]
rs56374518	0.81[AMR][1000 genomes]
rs56384403	0.92[AFR][1000 genomes]
rs57170714	0.95[AFR][1000 genomes];0.87[ASN][1000 genomes]
rs57693980	1.00[AFR][1000 genomes];0.83[ASN][1000 genomes]
rs57748269	0.92[AFR][1000 genomes];0.81[ASN][1000 genomes]
rs58238888	1.00[AFR][1000 genomes]
rs58288624	0.80[ASN][1000 genomes]
rs59233561	0.95[AFR][1000 genomes];0.87[ASN][1000 genomes]
rs59475656	0.95[AFR][1000 genomes];0.87[ASN][1000 genomes]
rs59959723	1.00[AFR][1000 genomes];0.88[AMR][1000 genomes];0.80[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs60311527	1.00[AFR][1000 genomes];0.81[ASN][1000 genomes]
rs61094745	1.00[AFR][1000 genomes];0.88[AMR][1000 genomes];0.80[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs61208746	1.00[AFR][1000 genomes]
rs61657599	0.83[ASN][1000 genomes]
rs61703239	1.00[AFR][1000 genomes];0.87[ASN][1000 genomes]
rs6909960	1.00[AFR][1000 genomes]
rs7742889	0.95[AFR][1000 genomes];0.87[ASN][1000 genomes]
rs7748319	0.92[AFR][1000 genomes];0.90[ASN][1000 genomes]
rs7751884	0.92[AFR][1000 genomes]
rs7755641	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7760656	1.00[AFR][1000 genomes];0.88[AMR][1000 genomes];0.80[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7765829	1.00[AFR][1000 genomes];0.88[AMR][1000 genomes];0.80[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7766599	1.00[AFR][1000 genomes];0.88[AMR][1000 genomes];0.80[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7772111	1.00[AFR][1000 genomes];0.81[ASN][1000 genomes]
rs7772482	0.83[ASN][1000 genomes]
rs7772682	0.97[AFR][1000 genomes];0.81[ASN][1000 genomes]
rs9688414	1.00[AFR][1000 genomes]
rs9767359	1.00[AFR][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:5 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:28710400-28712200	Bivalent/Poised TSS	iPS-20b Cell Line	embryonic stem cell
2	chr6:28711600-28712200	ZNF genes & repeats	Pancreatic Islets	Pancreatic Islet
3	chr6:28711600-28712200	Flanking Active TSS	K562	blood
4	chr6:28712000-28712200	Bivalent Enhancer	HUES6 Cell Line	embryonic stem cell
5	chr6:28712000-28714200	Weak transcription	A549	lung

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