Variant report

Variant	rs12535919
Chromosome Location	chr7:99543829-99543830
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr7:99515531..99518710-chr7:99542097..99545437,4	MCF-7	breast:

Variant related genes	Relation type
ENSG00000146833	Chromatin interaction

Extended variants
information (count: 28 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:22)

rs_ID	r²[population]
rs1048705	1.00[YRI][hapmap]
rs10808114	1.00[YRI][hapmap]
rs12535293	1.00[GIH][hapmap]
rs12536945	1.00[YRI][hapmap];0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17161937	1.00[GIH][hapmap]
rs17161971	1.00[GIH][hapmap]
rs17161974	1.00[GIH][hapmap]
rs17161981	1.00[GIH][hapmap]
rs17161983	1.00[GIH][hapmap]
rs2023548	1.00[GIH][hapmap]
rs2247761	1.00[YRI][hapmap]
rs2527901	0.82[YRI][hapmap]
rs2527919	1.00[YRI][hapmap]
rs2527922	1.00[YRI][hapmap]
rs2571997	1.00[YRI][hapmap]
rs2571998	1.00[YRI][hapmap]
rs2572003	1.00[YRI][hapmap]
rs2572005	1.00[YRI][hapmap]
rs2572006	1.00[YRI][hapmap]
rs2572008	0.87[YRI][hapmap]
rs2572019	1.00[YRI][hapmap]
rs2740566	1.00[GIH][hapmap]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv1829865	chr7:99430678-99755141	Strong transcription Weak transcription Active TSS Enhancers Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	1131 gene(s)	inside rSNPs	diseases
2	esv1830649	chr7:99430678-99755141	Strong transcription Flanking Active TSS Weak transcription Enhancers Bivalent Enhancer Active TSS Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	1131 gene(s)	inside rSNPs	diseases
3	nsv534298	chr7:99478011-99886076	Flanking Active TSS Enhancers Genic enhancers Strong transcription Weak transcription Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	1132 gene(s)	inside rSNPs	diseases
4	nsv607930	chr7:99525241-99602191	Enhancers Weak transcription Bivalent/Poised TSS Active TSS Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	22 gene(s)	inside rSNPs	diseases
5	esv1828362	chr7:99530233-99628773	Enhancers Active TSS Flanking Active TSS Bivalent Enhancer Weak transcription Strong transcription Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	39 gene(s)	inside rSNPs	diseases
6	nsv888772	chr7:99533178-99602191	Flanking Active TSS Enhancers Bivalent Enhancer Active TSS Weak transcription Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	20 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs12535919	TRIM4	cis	lymphoblastoid	seeQTL
rs12535919	TRIM4	cis	multi-tissue	Pritchard

Chromatin state (count:8 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:99532400-99548000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
2	chr7:99542000-99545200	Weak transcription	Primary monocytes fromperipheralblood	blood
3	chr7:99543000-99544000	Weak transcription	iPS-18 Cell Line	embryonic stem cell
4	chr7:99543000-99545200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
5	chr7:99543000-99545600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
6	chr7:99543200-99547400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
7	chr7:99543600-99544200	Enhancers	H9 Cell Line	embryonic stem cell
8	chr7:99543800-99544200	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell

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