Variant report

Variant	rs59131518
Chromosome Location	chr6:88421285-88421286
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:88410597..88412864-chr6:88418588..88421461,2	MCF-7	breast:
2	chr6:88419645..88421479-chr6:88422577..88425566,3	MCF-7	breast:
3	chr6:88415419..88418408-chr6:88419849..88421936,2	K562	blood:
4	chr6:88410177..88411869-chr6:88419616..88422374,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000135334	Chromatin interaction

Extended variants
information (count: 27 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:25)

rs_ID	r²[population]
rs12190308	0.91[ASN][1000 genomes]
rs16879704	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs16879736	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28381530	0.88[EUR][1000 genomes]
rs3763177	0.86[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs41273297	0.89[EUR][1000 genomes]
rs56400749	0.88[EUR][1000 genomes]
rs58060521	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs59774543	0.89[EUR][1000 genomes]
rs60082015	0.84[EUR][1000 genomes]
rs66502414	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs66588280	0.88[AMR][1000 genomes];0.97[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs66965134	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs67063139	0.81[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs67575319	0.98[AFR][1000 genomes];0.86[AMR][1000 genomes];0.97[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs67700862	0.85[AFR][1000 genomes];0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs67993159	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs68082038	0.88[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs715207	0.88[EUR][1000 genomes]
rs72906514	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72924342	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs7747792	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs7748286	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7776049	0.97[EUR][1000 genomes]
rs9450782	0.91[AMR][1000 genomes];0.91[EUR][1000 genomes];0.82[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	esv2758068	chr6:88358988-88441473	Flanking Active TSS Weak transcription Enhancers Active TSS Strong transcription Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
2	esv2759454	chr6:88358988-88441473	Strong transcription Active TSS Flanking Active TSS Weak transcription Transcr. at gene 5' and 3' Enhancers Genic enhancers ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:16 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:88412800-88432600	Weak transcription	Brain Angular Gyrus	brain
2	chr6:88413000-88421600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
3	chr6:88413200-88424200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
4	chr6:88417200-88423400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
5	chr6:88417200-88424000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
6	chr6:88417400-88421800	Weak transcription	A549	lung
7	chr6:88417400-88424000	Weak transcription	HSMM	muscle
8	chr6:88418200-88424000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
9	chr6:88418400-88423800	Weak transcription	Osteobl	bone
10	chr6:88418600-88424000	Weak transcription	NHDF-Ad	bronchial
11	chr6:88420200-88424000	Weak transcription	Primary hematopoietic stem cells short term culture	blood
12	chr6:88420200-88424000	Weak transcription	GM12878-XiMat	blood
13	chr6:88420200-88424000	Weak transcription	Monocytes-CD14+_RO01746	blood
14	chr6:88420200-88424200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
15	chr6:88420200-88436800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
16	chr6:88420400-88428400	Weak transcription	K562	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links