Variant report

Variant	rs2746150
Chromosome Location	chr6:29442701-29442702
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 15 )
Associated
traits (count: 8 )

rSNPs within LD-proxies of this variant (count:13)

rs_ID	r²[population]
rs1233480	0.86[EUR][1000 genomes]
rs1233493	0.98[EUR][1000 genomes]
rs1233494	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs1234844	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs2023463	0.98[EUR][1000 genomes]
rs2143668	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2523431	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2523432	0.92[EUR][1000 genomes]
rs2523443	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2746149	0.98[EUR][1000 genomes]
rs3094569	0.89[EUR][1000 genomes]
rs404240	0.91[EUR][1000 genomes]
rs408623	0.91[EUR][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	nsv830624	chr6:29274525-29445565	Enhancers Active TSS Weak transcription Bivalent/Poised TSS ZNF genes & repeats Flanking Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	11 gene(s)	inside rSNPs	diseases
2	esv3424039	chr6:29439297-29504564	Enhancers Weak transcription Flanking Active TSS Strong transcription ZNF genes & repeats Bivalent Enhancer Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases

mRNA abundance (count:8)

SNP	Gene	Cis/trans	Tissue	Source
rs2746150	BTN2A1	cis	parietal	SCAN
rs2746150	HIST1H2BM	cis	cerebellum	SCAN
rs2746150	BTN3A2	Cis_chr	lymphoblastoid	RTeQTL
rs2746150	BTN3A2	trans	lymphoblastoid	seeQTL
rs2746150	ZFP57	Cis_1M	lymphoblastoid	RTeQTL
rs2746150	HIST1H2BC	cis	parietal	SCAN
rs2746150	ZNF323	cis	parietal	SCAN
rs2746150	BTN3A2///BTN3A3	Cis_chr	lymphoblastoid	RTeQTL

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:29442600-29443600	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast

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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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