Variant report

Variant	rs7405825
Chromosome Location	chr17:33889704-33889705
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	ZNF384	chr17:33889435-33889740	K562	blood:	n/a	n/a

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr17:33883508..33885797-chr17:33888017..33890924,2	MCF-7	breast:
2	chr17:33886372..33890944-chr17:33891247..33895229,11	K562	blood:

Variant related genes	Relation type
SLFN14	TF binding region
ENSG00000242660	TF binding region
ENSG00000267625	TF binding region
ENSG00000242660	Chromatin interaction
ENSG00000236320	Chromatin interaction
ENSG00000267321	Chromatin interaction

Extended variants
information (count: 75 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:71)

rs_ID	r²[population]
rs10438814	0.82[ASN][1000 genomes]
rs1080352	0.82[ASN][1000 genomes]
rs11080356	0.82[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11652234	0.80[AMR][1000 genomes];0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1634683	0.91[ASN][1000 genomes]
rs17550632	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17550716	0.96[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs178736	0.91[ASN][1000 genomes]
rs225244	0.91[ASN][1000 genomes]
rs225246	0.91[ASN][1000 genomes]
rs225249	0.91[ASN][1000 genomes]
rs225250	0.91[ASN][1000 genomes]
rs225252	0.91[ASN][1000 genomes]
rs225256	0.91[ASN][1000 genomes]
rs225257	0.91[ASN][1000 genomes]
rs225258	0.91[ASN][1000 genomes]
rs225260	0.83[ASN][1000 genomes]
rs225261	0.91[ASN][1000 genomes]
rs225264	0.91[ASN][1000 genomes]
rs225265	0.91[ASN][1000 genomes]
rs225266	0.87[ASN][1000 genomes]
rs225267	0.91[ASN][1000 genomes]
rs225268	0.91[ASN][1000 genomes]
rs225270	0.82[ASN][1000 genomes]
rs225271	0.82[ASN][1000 genomes]
rs225274	0.82[ASN][1000 genomes]
rs225275	0.82[ASN][1000 genomes]
rs225276	0.82[ASN][1000 genomes]
rs225278	0.82[ASN][1000 genomes]
rs225279	0.82[ASN][1000 genomes]
rs225283	0.91[ASN][1000 genomes]
rs225285	0.87[ASN][1000 genomes]
rs225286	0.91[ASN][1000 genomes]
rs225287	0.91[ASN][1000 genomes]
rs225288	0.91[ASN][1000 genomes]
rs225294	0.91[ASN][1000 genomes]
rs225296	0.91[ASN][1000 genomes]
rs225298	0.91[ASN][1000 genomes]
rs225300	0.83[ASN][1000 genomes]
rs225303	0.91[ASN][1000 genomes]
rs225305	0.91[ASN][1000 genomes]
rs225307	0.91[ASN][1000 genomes]
rs225308	0.91[ASN][1000 genomes]
rs2376177	0.91[ASN][1000 genomes]
rs321598	0.86[AFR][1000 genomes]
rs35542792	0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs3859282	0.82[ASN][1000 genomes]
rs3859284	0.82[ASN][1000 genomes]
rs4796098	0.91[ASN][1000 genomes]
rs4796100	0.82[ASN][1000 genomes]
rs4796101	0.82[ASN][1000 genomes]
rs6505484	0.82[ASN][1000 genomes]
rs6505485	0.82[ASN][1000 genomes]
rs6505486	0.82[ASN][1000 genomes]
rs6505487	0.82[ASN][1000 genomes]
rs7208672	0.82[ASN][1000 genomes]
rs7210966	0.82[ASN][1000 genomes]
rs7211724	0.82[ASN][1000 genomes]
rs7213804	0.82[ASN][1000 genomes]
rs7214250	0.82[ASN][1000 genomes]
rs7214742	0.82[ASN][1000 genomes]
rs7217378	0.82[ASN][1000 genomes]
rs72828038	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8064895	0.82[ASN][1000 genomes]
rs8071584	0.82[ASN][1000 genomes]
rs8072676	0.82[ASN][1000 genomes]
rs8074800	0.82[ASN][1000 genomes]
rs8077826	0.82[ASN][1000 genomes]
rs9303690	0.82[ASN][1000 genomes]
rs9894813	0.86[ASN][1000 genomes]
rs9912939	0.82[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv534371	chr17:33456878-34094068	Strong transcription Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	137 gene(s)	inside rSNPs	diseases
2	nsv908079	chr17:33849869-34034851	Active TSS Strong transcription Flanking Active TSS Enhancers Weak transcription Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	44 gene(s)	inside rSNPs	diseases
3	nsv1060890	chr17:33884124-34011034	Weak transcription Flanking Active TSS Active TSS Enhancers Strong transcription Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	40 gene(s)	inside rSNPs	diseases
4	nsv543318	chr17:33884124-34011034	Genic enhancers Strong transcription Flanking Active TSS Weak transcription Active TSS Enhancers Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	40 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs7405825	LOC645744	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:4 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr17:33888400-33889800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
2	chr17:33888400-33890200	Enhancers	K562	blood
3	chr17:33888600-33894200	Weak transcription	Primary hematopoietic stem cells	blood
4	chr17:33889600-33894000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links