Variant report

Variant	rs11577695
Chromosome Location	chr1:160482519-160482520
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 22 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:20)

rs_ID	r²[population]
rs11583402	0.91[AMR][1000 genomes];0.85[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs11585738	0.90[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs17381453	0.91[AMR][1000 genomes];0.82[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs17385407	0.80[EUR][1000 genomes]
rs3733264	0.88[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs3733265	0.88[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs3766385	0.88[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs4145897	0.91[AMR][1000 genomes];0.85[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs61802603	0.82[AFR][1000 genomes];0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs61802604	0.91[AMR][1000 genomes];0.89[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs61802605	0.91[AMR][1000 genomes];0.85[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs61802606	0.91[AMR][1000 genomes];0.82[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs61802608	0.84[AMR][1000 genomes]
rs6697596	0.91[AMR][1000 genomes];0.91[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs6699346	0.91[AMR][1000 genomes];0.90[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs67197441	0.84[AMR][1000 genomes]
rs72708818	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs72708832	0.84[AMR][1000 genomes]
rs7418241	0.91[AMR][1000 genomes];0.85[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7539982	0.91[AMR][1000 genomes];0.89[EUR][1000 genomes];0.85[ASN][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
rs11577695	CD84	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:21 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:160473800-160485800	Weak transcription	Thymus	Thymus
2	chr1:160481000-160483000	ZNF genes & repeats	GM12878-XiMat	blood
3	chr1:160481400-160482600	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
4	chr1:160481400-160484200	Genic enhancers	Primary T helper cells PMA-I stimulated	--
5	chr1:160481400-160484800	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
6	chr1:160481600-160482600	Genic enhancers	Primary T cells fromperipheralblood	blood
7	chr1:160481600-160482600	Genic enhancers	Primary T helper 17 cells PMA-I stimulated	--
8	chr1:160481600-160482600	Genic enhancers	Primary Natural Killer cells fromperipheralblood	blood
9	chr1:160481600-160484000	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
10	chr1:160481800-160483400	Genic enhancers	Primary B cells from peripheral blood	blood
11	chr1:160482000-160482800	Strong transcription	Primary T cells from cord blood	blood
12	chr1:160482200-160482600	Weak transcription	Primary T killer memory cells from peripheral blood	blood
13	chr1:160482200-160483200	Genic enhancers	Primary T helper cells fromperipheralblood	blood
14	chr1:160482200-160483600	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
15	chr1:160482200-160484000	Weak transcription	Primary B cells from cord blood	blood
16	chr1:160482200-160489200	Weak transcription	Fetal Thymus	thymus
17	chr1:160482400-160482800	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
18	chr1:160482400-160483000	Enhancers	HepG2	liver
19	chr1:160482400-160483600	Weak transcription	Primary T helper naive cells from peripheral blood	blood
20	chr1:160482400-160485200	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
21	chr1:160482400-160485600	Weak transcription	Primary T helper naive cells fromperipheralblood	blood

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