Variant report

Variant	rs2912525
Chromosome Location	chr8:69938895-69938896
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:10)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

No data

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

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr8:69936136..69938952-chr8:70399605..70401697,2	MCF-7	breast:
2	chr8:69779434..69781430-chr8:69938398..69940569,2	MCF-7	breast:
3	chr8:69763965..69768682-chr8:69936311..69940629,5	MCF-7	breast:
4	chr8:69936504..69939318-chr8:70021780..70023700,3	MCF-7	breast:
5	chr8:69938259..69942128-chr8:69942869..69947061,5	MCF-7	breast:
6	chr8:69843828..69845406-chr8:69938047..69940991,2	MCF-7	breast:
7	chr8:69765448..69769118-chr8:69936665..69941458,7	MCF-7	breast:
8	chr8:69762264..69763807-chr8:69938743..69941277,2	MCF-7	breast:
9	chr8:69937690..69940143-chr8:69983097..69986013,2	MCF-7	breast:
10	chr8:69765308..69766113-chr8:69938078..69939052,3	MCF-7	breast:

No data

No data

No data

Extended variants
information (count: 17 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:14)

rs_ID	r²[population]
rs10096502	0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10957456	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12544142	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12680675	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1343725	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2912503	0.81[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs2981069	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.95[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2981071	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4349991	0.87[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs5015160	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6472435	0.86[ASN][1000 genomes]
rs6985889	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7010538	0.85[EUR][1000 genomes]
rs7463837	0.91[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1031633	chr8:69766575-70322790	Enhancers Weak transcription Active TSS Strong transcription Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
2	esv33049	chr8:69836813-69943360	Flanking Active TSS Enhancers Active TSS Genic enhancers Weak transcription Strong transcription ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
3	nsv982081	chr8:69929430-69943096	Enhancers Weak transcription Strong transcription ZNF genes & repeats Flanking Active TSS Active TSS Genic enhancers	Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs2912525	LRRC67	cis	cerebellum	SCAN
rs2912525	ADHFE1	cis	parietal	SCAN
rs2912525	DNAJC5B	cis	parietal	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr8:69930200-69940800	Weak transcription	HSMM	muscle
2	chr8:69930800-69942800	Weak transcription	Osteobl	bone
3	chr8:69938000-69939000	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
4	chr8:69938400-69940000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
5	chr8:69938600-69942800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
6	chr8:69938800-69939800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
7	chr8:69938800-69940000	Weak transcription	NHEK	skin

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Input of quick search could be:

dbSNP/dbVar ID: rs12345 /nsv7879
a single nucleotide as 0-based coordinates: chr1:12345
chromosomal regions: chr1:12345-34567

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