Variant report

Variant	rs34405286
Chromosome Location	chr14:69949908-69949909
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr14:69862767..69865090-chr14:69948473..69950881,2	MCF-7	breast:
2	chr14:69946123..69947705-chr14:69948349..69951147,2	MCF-7	breast:
3	chr14:69947861..69950985-chr14:69958572..69961159,3	MCF-7	breast:
4	chr14:69949714..69952374-chr14:70039182..70041131,3	MCF-7	breast:
5	chr14:69947992..69950774-chr14:69962839..69965833,3	K562	blood:
6	chr14:69949476..69951469-chr14:70232962..70234565,2	MCF-7	breast:
7	chr14:69947992..69950774-chr14:69962839..69965276,2	K562	blood:

Variant related genes	Relation type
ENSG00000100650	Chromatin interaction
ENSG00000029364	Chromatin interaction
ENSG00000267909	Chromatin interaction
ENSG00000100632	Chromatin interaction

Extended variants
information (count: 58 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:50)

rs_ID	r²[population]
rs10083335	0.81[AMR][1000 genomes]
rs10129186	0.83[AMR][1000 genomes]
rs10129720	0.95[AFR][1000 genomes];0.98[AMR][1000 genomes];0.85[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10138313	0.86[AMR][1000 genomes]
rs10143593	0.88[AMR][1000 genomes]
rs10143710	0.84[AMR][1000 genomes]
rs10151691	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11622711	0.87[AMR][1000 genomes]
rs11623094	0.84[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs11624577	0.88[AMR][1000 genomes]
rs12147478	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12147967	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12436172	0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12878175	0.88[AMR][1000 genomes]
rs12893282	0.83[AMR][1000 genomes]
rs12895620	0.82[AMR][1000 genomes]
rs1466255	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1958121	0.88[AMR][1000 genomes]
rs1965878	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2085193	0.86[AMR][1000 genomes]
rs2100489	0.86[AMR][1000 genomes];0.85[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2124191	0.83[AMR][1000 genomes]
rs2296722	0.87[AMR][1000 genomes]
rs28401542	0.81[AMR][1000 genomes]
rs28470369	0.83[AMR][1000 genomes]
rs28661733	0.86[AMR][1000 genomes]
rs28879441	0.86[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs34840252	0.88[AMR][1000 genomes]
rs3759770	0.82[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs3759771	0.82[AMR][1000 genomes]
rs4899295	0.87[AMR][1000 genomes]
rs4902717	0.83[AMR][1000 genomes]
rs4902719	0.85[AMR][1000 genomes];0.85[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs56392460	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs56953348	0.88[AMR][1000 genomes]
rs67502261	0.86[AMR][1000 genomes]
rs7143858	0.83[AMR][1000 genomes]
rs7145944	0.87[AMR][1000 genomes]
rs7147362	0.88[AMR][1000 genomes]
rs7147710	0.88[AMR][1000 genomes]
rs7160248	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs8010767	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs8012954	0.88[AMR][1000 genomes]
rs8014890	0.88[AMR][1000 genomes]
rs8015317	0.83[AMR][1000 genomes]
rs8015425	0.81[AMR][1000 genomes]
rs8016781	0.88[AMR][1000 genomes]
rs8020817	0.80[AMR][1000 genomes]
rs959242	0.81[AMR][1000 genomes]
rs9796392	0.83[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3396933	chr14:69906914-70001258	Enhancers Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Weak transcription Strong transcription Bivalent Enhancer Active TSS Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
2	nsv1048882	chr14:69920881-69976694	Enhancers Weak transcription Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh Active TSS Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
3	nsv1052107	chr14:69922552-69969297	Enhancers Weak transcription Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription Flanking Active TSS Genic enhancers Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
4	nsv1039230	chr14:69922552-69972002	Strong transcription Enhancers Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Active TSS Flanking Active TSS Bivalent/Poised TSS Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
5	nsv1039192	chr14:69922552-69976694	Bivalent Enhancer Weak transcription Strong transcription Bivalent/Poised TSS Enhancers Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
6	nsv456335	chr14:69928307-69971598	Weak transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Enhancers Bivalent/Poised TSS Strong transcription Active TSS Flanking Active TSS Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	6 gene(s)	inside rSNPs	diseases
7	nsv564967	chr14:69928307-69971598	Flanking Bivalent TSS/Enh Enhancers Weak transcription Bivalent Enhancer Bivalent/Poised TSS Strong transcription Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region	6 gene(s)	inside rSNPs	diseases
8	nsv1050258	chr14:69942127-69976694	Bivalent/Poised TSS Flanking Bivalent TSS/Enh Enhancers Bivalent Enhancer Flanking Active TSS Active TSS ZNF genes & repeats Weak transcription	TF binding region CpG island Chromatin interactive region	6 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs34405286	SLC39A9	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:10 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr14:69923600-69950400	Weak transcription	Gastric	stomach
2	chr14:69928600-69950600	Weak transcription	Aorta	Aorta
3	chr14:69948000-69950000	Enhancers	Skeletal Muscle Female	skeletal muscle
4	chr14:69948600-69950000	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
5	chr14:69948600-69950400	Bivalent Enhancer	Fetal Muscle Leg	muscle
6	chr14:69949200-69950600	Bivalent Enhancer	Fetal Muscle Trunk	muscle
7	chr14:69949400-69950000	Enhancers	Skeletal Muscle Male	skeletal muscle
8	chr14:69949400-69950400	Weak transcription	Lung	lung
9	chr14:69949400-69950400	Weak transcription	Psoas Muscle	Psoas
10	chr14:69949800-69952600	Bivalent/Poised TSS	iPS-15b Cell Line	embryonic stem cell

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