Variant report

Variant	rs4106115
Chromosome Location	chr1:160475375-160475376
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 14 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:12)

rs_ID	r²[population]
rs10797073	0.80[AMR][1000 genomes];0.84[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1138323	0.85[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs12144628	0.85[AMR][1000 genomes];0.85[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2025516	0.87[ASN][1000 genomes]
rs2025517	0.87[ASN][1000 genomes]
rs2099604	0.86[AMR][1000 genomes];0.85[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs3816146	0.85[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs6656191	0.80[AFR][1000 genomes];0.88[AMR][1000 genomes];0.89[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6660233	0.92[AFR][1000 genomes];0.98[AMR][1000 genomes];0.94[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7515302	0.96[ASN][1000 genomes]
rs7528976	0.80[AFR][1000 genomes];0.86[AMR][1000 genomes];0.89[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9726326	0.83[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	esv1829614	chr1:160465291-160595000	Strong transcription Enhancers Weak transcription Flanking Active TSS Genic enhancers Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases
2	nsv872491	chr1:160470258-160580549	Weak transcription Flanking Active TSS Enhancers Strong transcription Genic enhancers Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs4106115	CD84	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:15 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:160468000-160477000	ZNF genes & repeats	GM12878-XiMat	blood
2	chr1:160470800-160475400	Genic enhancers	Primary T helper cells PMA-I stimulated	--
3	chr1:160473800-160475600	Strong transcription	Primary B cells from cord blood	blood
4	chr1:160473800-160485800	Weak transcription	Thymus	Thymus
5	chr1:160474400-160475400	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
6	chr1:160474400-160476000	Weak transcription	Primary T cells from cord blood	blood
7	chr1:160474600-160475800	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
8	chr1:160474600-160475800	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
9	chr1:160474600-160476000	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
10	chr1:160474600-160480000	Weak transcription	Primary T helper naive cells from peripheral blood	blood
11	chr1:160475000-160476000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
12	chr1:160475200-160475600	ZNF genes & repeats	Primary Natural Killer cells fromperipheralblood	blood
13	chr1:160475200-160475600	Enhancers	Placenta	Placenta
14	chr1:160475200-160476000	ZNF genes & repeats	Primary T cells fromperipheralblood	blood
15	chr1:160475200-160477800	ZNF genes & repeats	Primary B cells from peripheral blood	blood

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

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