Variant report

Variant	rs2395554
Chromosome Location	chr6:34026397-34026398
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:34022602..34024513-chr6:34024525..34027484,2	K562	blood:
2	chr6:34024875..34026613-chr6:34038654..34040465,2	K562	blood:
3	chr6:34024186..34027778-chr6:34033635..34036854,3	K562	blood:
4	chr6:34026017..34027885-chr6:34027983..34029825,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000124493	Chromatin interaction

Extended variants
information (count: 48 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:43)

rs_ID	r²[population]
rs12111392	0.94[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12663035	0.81[EUR][1000 genomes]
rs12664932	0.81[EUR][1000 genomes]
rs1565365	0.82[EUR][1000 genomes]
rs1565366	0.82[EUR][1000 genomes]
rs1873250	0.87[AMR][1000 genomes];0.99[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1873254	0.82[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs2229900	0.93[EUR][1000 genomes]
rs2451358	0.87[AMR][1000 genomes];0.98[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2451381	0.81[EUR][1000 genomes]
rs2451382	0.84[EUR][1000 genomes]
rs2451383	0.84[EUR][1000 genomes]
rs2451384	0.84[EUR][1000 genomes]
rs2451385	0.84[EUR][1000 genomes]
rs2451386	0.86[EUR][1000 genomes]
rs2451387	0.86[EUR][1000 genomes]
rs2499672	0.84[EUR][1000 genomes]
rs2499673	0.84[EUR][1000 genomes]
rs2499674	0.84[EUR][1000 genomes]
rs2499675	0.84[EUR][1000 genomes]
rs2499676	0.84[EUR][1000 genomes]
rs2499677	0.86[EUR][1000 genomes]
rs3103432	0.86[EUR][1000 genomes]
rs35075443	0.86[EUR][1000 genomes]
rs35411382	0.85[EUR][1000 genomes]
rs3734361	0.82[EUR][1000 genomes]
rs3778050	0.81[ASN][1000 genomes]
rs3778068	0.86[AFR][1000 genomes]
rs3798529	0.86[EUR][1000 genomes]
rs4713735	0.82[EUR][1000 genomes]
rs4713736	0.97[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6901097	0.86[AFR][1000 genomes]
rs6922166	0.82[EUR][1000 genomes]
rs71556962	0.84[EUR][1000 genomes]
rs7772059	0.81[EUR][1000 genomes]
rs7775780	0.81[EUR][1000 genomes]
rs9366837	0.81[EUR][1000 genomes]
rs9368791	0.82[AMR][1000 genomes]
rs9394185	0.84[EUR][1000 genomes]
rs9461949	0.81[EUR][1000 genomes]
rs9469690	0.81[EUR][1000 genomes]
rs9469691	0.81[EUR][1000 genomes]
rs9469697	0.81[EUR][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	nsv916210	chr6:33804111-34144062	Weak transcription Bivalent/Poised TSS Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Enhancers Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA miRNA	32 gene(s)	inside rSNPs	diseases
2	nsv462900	chr6:33932442-34195011	Bivalent/Poised TSS Enhancers Flanking Active TSS Active TSS Bivalent Enhancer Weak transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	17 gene(s)	inside rSNPs	diseases
3	nsv602843	chr6:33932442-34195011	Flanking Bivalent TSS/Enh Active TSS Flanking Active TSS Enhancers Genic enhancers Bivalent Enhancer Weak transcription ZNF genes & repeats Bivalent/Poised TSS Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	17 gene(s)	inside rSNPs	diseases
4	nsv462901	chr6:33953646-34050917	ZNF genes & repeats Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Flanking Active TSS Enhancers Active TSS Bivalent/Poised TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	7 gene(s)	inside rSNPs	diseases
5	nsv602861	chr6:33953646-34050917	Weak transcription Bivalent Enhancer Enhancers Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Flanking Active TSS Bivalent/Poised TSS Genic enhancers Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	7 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:13 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:34002800-34027000	Weak transcription	Spleen	Spleen
2	chr6:34024000-34036000	Weak transcription	HUES48 Cell Line	embryonic stem cell
3	chr6:34024600-34026600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
4	chr6:34024800-34027200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
5	chr6:34024800-34027400	Strong transcription	iPS-15b Cell Line	embryonic stem cell
6	chr6:34025000-34027000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
7	chr6:34025000-34036000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
8	chr6:34025000-34101800	Weak transcription	Right Atrium	heart
9	chr6:34025200-34035800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
10	chr6:34025200-34036000	Weak transcription	HUES6 Cell Line	embryonic stem cell
11	chr6:34025200-34039600	Weak transcription	Gastric	stomach
12	chr6:34025600-34027000	Bivalent Enhancer	Fetal Muscle Trunk	muscle
13	chr6:34025800-34028000	Genic enhancers	iPS DF 19.11 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links