Variant report

Variant	rs35589595
Chromosome Location	chr3:160930984-160930985
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr3:160926864..160930138-chr3:160930541..160935617,4	K562	blood:
2	chr3:160929000..160932392-chr3:160935549..160937889,3	K562	blood:
3	chr3:160929320..160932120-chr3:160936830..160940918,6	MCF-7	breast:

Variant related genes	Relation type
ENSG00000169251	Chromatin interaction

Extended variants
information (count: 38 )
Associated
traits (count: 4 )

rSNPs within LD-proxies of this variant (count:36)

rs_ID	r²[population]
rs11711413	0.81[AMR][1000 genomes]
rs11720263	0.80[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs11915989	0.86[AFR][1000 genomes];0.94[AMR][1000 genomes];0.88[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11922959	0.81[EUR][1000 genomes]
rs13059758	0.85[AFR][1000 genomes];0.83[AMR][1000 genomes];0.87[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs13071892	0.81[EUR][1000 genomes]
rs13085336	0.92[AMR][1000 genomes];0.84[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs1599388	0.80[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs28384382	0.94[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs34016896	0.80[AMR][1000 genomes]
rs34105342	0.87[AFR][1000 genomes];0.94[AMR][1000 genomes];0.90[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs34630898	0.81[EUR][1000 genomes]
rs34972965	0.84[AMR][1000 genomes]
rs35127376	0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35310734	0.83[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs35914913	0.81[EUR][1000 genomes]
rs4493447	0.80[AMR][1000 genomes]
rs4494975	0.80[AMR][1000 genomes];0.81[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs4856700	0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4856756	0.80[AMR][1000 genomes]
rs4856757	0.81[AMR][1000 genomes]
rs4856769	0.80[AMR][1000 genomes]
rs6441362	0.89[AMR][1000 genomes];0.85[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs66508859	0.84[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs6772723	0.82[AFR][1000 genomes];0.94[AMR][1000 genomes];0.88[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6794882	0.81[EUR][1000 genomes]
rs68166680	0.80[EUR][1000 genomes]
rs73023235	0.81[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs73026974	0.84[AMR][1000 genomes]
rs73026976	0.84[AMR][1000 genomes]
rs7610800	0.81[AMR][1000 genomes]
rs7618924	0.80[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs7630356	0.80[AMR][1000 genomes]
rs7638370	0.95[AFR][1000 genomes];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7647374	0.84[AMR][1000 genomes]
rs7648279	0.83[AMR][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	nsv931072	chr3:160669567-161159779	Enhancers Strong transcription Weak transcription Flanking Active TSS Active TSS Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	98 gene(s)	inside rSNPs	diseases
2	nsv1015063	chr3:160918307-161024070	Strong transcription Weak transcription Enhancers Flanking Active TSS Genic enhancers Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases

mRNA abundance (count:4)

SNP	Gene	Cis/trans	Tissue	Source
rs35589595	SPTSSB	cis	Thyroid	GTEx
rs35589595	B3GALNT1	Cis_1M	lymphoblastoid	RTeQTL
rs35589595	SPTSSB	cis	Nerve Tibial	GTEx
rs35589595	SPTSSB	cis	Adipose Subcutaneous	GTEx

Chromatin state (count:7 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:160926000-160938400	Weak transcription	Brain Substantia Nigra	brain
2	chr3:160929400-160931200	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
3	chr3:160929600-160931000	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
4	chr3:160929600-160931800	Enhancers	Cortex derived primary cultured neurospheres	brain
5	chr3:160930000-160931400	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
6	chr3:160930200-160932000	Enhancers	HUES64 Cell Line	embryonic stem cell
7	chr3:160930400-160931000	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived

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