Variant report

Variant	rs55917218
Chromosome Location	chr1:160472501-160472502
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 12 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:10)

rs_ID	r²[population]
rs1055880	0.80[AMR][1000 genomes]
rs11265424	0.83[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs17385337	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17385407	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs3733266	0.80[AMR][1000 genomes]
rs3766389	0.80[AMR][1000 genomes]
rs61802603	0.83[EUR][1000 genomes]
rs6697596	0.81[EUR][1000 genomes]
rs6699346	0.80[EUR][1000 genomes]
rs72708818	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
rs55917218	CD84	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:23 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:160461200-160472600	Weak transcription	Thymus	Thymus
2	chr1:160466200-160473000	Weak transcription	Fetal Thymus	thymus
3	chr1:160466200-160474200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
4	chr1:160468000-160477000	ZNF genes & repeats	GM12878-XiMat	blood
5	chr1:160468800-160473000	Strong transcription	Primary T cells from cord blood	blood
6	chr1:160469200-160472600	Strong transcription	Primary B cells from cord blood	blood
7	chr1:160470200-160472600	Weak transcription	Primary hematopoietic stem cells short term culture	blood
8	chr1:160470800-160475400	Genic enhancers	Primary T helper cells PMA-I stimulated	--
9	chr1:160471200-160472800	Weak transcription	Primary T killer memory cells from peripheral blood	blood
10	chr1:160471200-160473000	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
11	chr1:160471200-160475200	Weak transcription	Placenta	Placenta
12	chr1:160471400-160472600	Strong transcription	Primary T helper memory cells from peripheral blood 1	blood
13	chr1:160471400-160474600	Enhancers	Primary T helper cells fromperipheralblood	blood
14	chr1:160471600-160474200	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
15	chr1:160471600-160474600	Genic enhancers	Primary B cells from peripheral blood	blood
16	chr1:160471600-160474600	Enhancers	Primary T killer naive cells fromperipheralblood	blood
17	chr1:160471800-160473800	Genic enhancers	Primary T cells fromperipheralblood	blood
18	chr1:160471800-160474600	Enhancers	Primary T helper naive cells fromperipheralblood	blood
19	chr1:160472000-160475200	Weak transcription	Pancreatic Islets	Pancreatic Islet
20	chr1:160472400-160472800	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
21	chr1:160472400-160472800	Weak transcription	Primary T helper naive cells from peripheral blood	blood
22	chr1:160472400-160473000	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
23	chr1:160472400-160474200	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood

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