Variant report

Variant	rs2859355
Chromosome Location	chr6:28461221-28461222
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:28457372..28460097-chr6:28460579..28463613,3	MCF-7	breast:
2	chr6:28459930..28463382-chr6:28485112..28487200,3	K562	blood:
3	chr6:28460681..28463382-chr6:28485112..28487142,2	K562	blood:
4	chr6:28364266..28370257-chr6:28453674..28463075,14	K562	blood:
5	chr6:28460910..28464235-chr6:28552561..28556324,4	MCF-7	breast:
6	chr6:28459830..28463091-chr6:28469515..28471926,3	K562	blood:
7	chr6:27861927..27864710-chr6:28460842..28463386,2	K562	blood:

Variant related genes	Relation type
ENSG00000232040	Chromatin interaction
ENSG00000158691	Chromatin interaction
ENSG00000246350	Chromatin interaction

Extended variants
information (count: 34 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:31)

rs_ID	r²[population]
rs1003359	0.88[AMR][1000 genomes];0.85[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12661782	0.83[CHD][hapmap]
rs16894139	0.91[CHB][hapmap];0.84[CHD][hapmap];0.83[ASN][1000 genomes]
rs2021745	0.84[CHD][hapmap]
rs2071966	0.83[CHD][hapmap]
rs2078035	0.83[ASN][1000 genomes]
rs2078439	0.83[ASN][1000 genomes]
rs2191037	0.89[ASN][1000 genomes]
rs2227228	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2531813	0.84[CHD][hapmap]
rs2531814	0.80[CHD][hapmap]
rs2531822	0.98[AFR][1000 genomes];0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2859356	1.00[CHB][hapmap];1.00[CHD][hapmap];0.95[GIH][hapmap];0.89[ASN][1000 genomes]
rs2859358	1.00[CHB][hapmap];0.89[ASN][1000 genomes]
rs2859372	0.84[CHD][hapmap]
rs2859374	0.81[CHD][hapmap]
rs377514	0.83[ASN][1000 genomes]
rs406113	0.89[AFR][1000 genomes];0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs434112	0.91[AFR][1000 genomes];0.93[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs437691	0.83[AMR][1000 genomes]
rs440481	0.82[ASN][1000 genomes]
rs445870	0.81[AMR][1000 genomes];0.85[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs451774	0.89[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs454182	0.84[AMR][1000 genomes]
rs4713167	0.90[AMR][1000 genomes];0.89[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6456822	0.88[AMR][1000 genomes];0.88[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6456823	0.88[AMR][1000 genomes];0.85[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6921021	0.85[ASN][1000 genomes]
rs7743046	0.90[AMR][1000 genomes];0.89[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9468385	0.91[CHB][hapmap];0.91[CHD][hapmap];0.81[ASN][1000 genomes]
rs974334	1.00[CHB][hapmap];1.00[CHD][hapmap];0.94[GIH][hapmap];0.89[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv462666	chr6:28417222-28574415	Bivalent/Poised TSS Flanking Active TSS Bivalent Enhancer Weak transcription Active TSS Flanking Bivalent TSS/Enh Enhancers Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	28 gene(s)	inside rSNPs	diseases
2	nsv601210	chr6:28417222-28574415	Active TSS Bivalent/Poised TSS Weak transcription Bivalent Enhancer Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Strong transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	28 gene(s)	inside rSNPs	diseases
3	nsv1020689	chr6:28449137-28635171	Flanking Active TSS Active TSS Enhancers Bivalent/Poised TSS Bivalent Enhancer Weak transcription Flanking Bivalent TSS/Enh Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	33 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs2859355	ZNF323	cis	cerebellum	SCAN

Chromatin state (count:2 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:28458800-28465600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
2	chr6:28460400-28465400	Weak transcription	K562	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links