Variant report

Variant	rs61802603
Chromosome Location	chr1:160487161-160487162
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 29 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:27)

rs_ID	r²[population]
rs11265424	0.83[EUR][1000 genomes]
rs11577695	0.82[AFR][1000 genomes];0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11583402	0.96[AMR][1000 genomes];0.90[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11585738	0.94[AMR][1000 genomes];0.86[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11590035	0.86[ASN][1000 genomes]
rs17381453	0.96[AMR][1000 genomes];0.86[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs17385337	0.83[EUR][1000 genomes]
rs17385407	0.84[EUR][1000 genomes]
rs3733264	0.93[AMR][1000 genomes];0.86[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs3733265	0.93[AMR][1000 genomes];0.86[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs3766385	0.90[AMR][1000 genomes];0.86[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4145897	0.96[AMR][1000 genomes];0.90[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs55917218	0.83[EUR][1000 genomes]
rs56040770	0.86[ASN][1000 genomes]
rs61802604	0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs61802605	0.96[AMR][1000 genomes];0.90[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs61802606	0.96[AMR][1000 genomes];0.86[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs61802608	0.86[AMR][1000 genomes];0.82[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs61802610	0.83[ASN][1000 genomes]
rs6670721	0.86[ASN][1000 genomes]
rs6697596	0.82[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6699346	0.82[AFR][1000 genomes];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs67197441	0.86[AMR][1000 genomes];0.82[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs72708818	0.88[AFR][1000 genomes];0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs72708832	0.86[AMR][1000 genomes];0.82[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7418241	0.96[AMR][1000 genomes];0.90[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7539982	0.82[AFR][1000 genomes];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[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
rs61802603	CD84	Cis_1M	lymphoblastoid	RTeQTL

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:160482200-160489200	Weak transcription	Fetal Thymus	thymus
2	chr1:160482600-160489200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
3	chr1:160482800-160488800	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
4	chr1:160483600-160489000	Enhancers	Primary T helper naive cells from peripheral blood	blood
5	chr1:160484000-160489200	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
6	chr1:160484800-160489000	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
7	chr1:160484800-160489200	Enhancers	Primary T killer naive cells fromperipheralblood	blood
8	chr1:160484800-160489200	Enhancers	Primary T killer memory cells from peripheral blood	blood
9	chr1:160485000-160489200	Enhancers	Primary T helper cells fromperipheralblood	blood
10	chr1:160485400-160487200	Enhancers	Primary B cells from peripheral blood	blood
11	chr1:160485600-160489200	Enhancers	Primary T helper naive cells fromperipheralblood	blood
12	chr1:160485800-160488800	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
13	chr1:160486000-160487400	Weak transcription	Primary T cells fromperipheralblood	blood
14	chr1:160486000-160490000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
15	chr1:160486200-160488400	Weak transcription	Primary T cells from cord blood	blood
16	chr1:160486200-160489200	Weak transcription	Thymus	Thymus
17	chr1:160486400-160487200	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
18	chr1:160486800-160487800	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
19	chr1:160486800-160489800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
20	chr1:160487000-160488000	Strong transcription	Primary B cells from cord blood	blood
21	chr1:160487000-160488000	Enhancers	Primary T helper cells PMA-I stimulated	--

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