Variant report

Variant	rs11590035
Chromosome Location	chr1:160534684-160534685
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr1:160533660..160535894-chr1:160538727..160540952,2	K562	blood:

Extended variants
information (count: 66 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:63)

rs_ID	r²[population]
rs1055880	0.95[CEU][hapmap];0.83[EUR][1000 genomes]
rs1061217	0.83[CEU][hapmap]
rs11265442	0.81[CEU][hapmap]
rs11265452	0.91[CEU][hapmap]
rs11583402	0.95[CEU][hapmap];1.00[JPT][hapmap];0.82[AMR][1000 genomes];0.88[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11585738	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.90[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12144628	0.84[CEU][hapmap]
rs12402879	0.81[CEU][hapmap]
rs12728784	0.84[CEU][hapmap]
rs1394078	0.96[CEU][hapmap];0.82[EUR][1000 genomes]
rs151607	0.84[CEU][hapmap]
rs1572382	0.81[CEU][hapmap]
rs16832283	0.91[CEU][hapmap]
rs1726	0.82[EUR][1000 genomes]
rs17381453	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[AMR][1000 genomes];0.90[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs17385337	0.87[CEU][hapmap]
rs17385407	0.96[CEU][hapmap]
rs17385878	0.84[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs1809963	0.92[CEU][hapmap]
rs1998651	0.81[CEU][hapmap]
rs2025516	0.81[CEU][hapmap]
rs2083128	0.88[CEU][hapmap];0.86[EUR][1000 genomes]
rs2099604	0.86[CEU][hapmap]
rs2753260	0.83[CEU][hapmap]
rs3733264	0.96[CEU][hapmap];1.00[CHB][hapmap];0.87[JPT][hapmap];0.85[AMR][1000 genomes];0.90[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs3733265	0.96[CEU][hapmap];1.00[CHB][hapmap];0.87[JPT][hapmap];0.85[AMR][1000 genomes];0.90[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs3733266	0.96[CEU][hapmap];0.82[EUR][1000 genomes]
rs3755898	0.87[EUR][1000 genomes]
rs3766384	0.87[EUR][1000 genomes]
rs3766385	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.90[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs3766387	0.96[CEU][hapmap];0.87[EUR][1000 genomes]
rs3766388	0.87[CEU][hapmap]
rs3766389	0.96[CEU][hapmap];0.82[EUR][1000 genomes]
rs3816146	0.88[CEU][hapmap]
rs4145897	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs5002947	1.00[CEU][hapmap];0.82[EUR][1000 genomes]
rs56040770	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61801562	0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs61801564	0.86[EUR][1000 genomes]
rs61801565	0.86[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs61801567	0.86[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs61802603	0.86[ASN][1000 genomes]
rs61802604	0.82[AMR][1000 genomes];0.83[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs61802605	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs61802606	0.82[AMR][1000 genomes];0.90[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs61802608	0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs61802610	0.97[ASN][1000 genomes]
rs6662093	0.84[EUR][1000 genomes]
rs6668760	0.84[CEU][hapmap]
rs6670721	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6687641	0.92[CEU][hapmap];0.85[EUR][1000 genomes]
rs6692382	0.84[CEU][hapmap]
rs6697596	0.82[AMR][1000 genomes];0.81[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs6699346	0.82[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs67197441	0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs72708818	0.86[ASN][1000 genomes]
rs72708832	0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7418241	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7539982	0.82[AMR][1000 genomes];0.83[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7547054	0.88[CEU][hapmap];0.85[EUR][1000 genomes]
rs7550771	0.83[CEU][hapmap]
rs912582	0.96[CEU][hapmap]
rs977019	0.84[CEU][hapmap]

Variant overlapped rSNPs/rCNVs (count:3 , 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
3	nsv831703	chr1:160496124-160643024	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Genic enhancers Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs11590035	CD84	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:30 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:160523000-160543200	Weak transcription	Gastric	stomach
2	chr1:160527800-160535200	Weak transcription	Pancreas	Pancrea
3	chr1:160529200-160537000	Weak transcription	K562	blood
4	chr1:160529400-160535200	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
5	chr1:160531400-160535200	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
6	chr1:160531400-160535200	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Male	--
7	chr1:160531400-160536800	Weak transcription	Dnd41	blood
8	chr1:160531600-160535800	Weak transcription	Thymus	Thymus
9	chr1:160532400-160536000	Strong transcription	Primary B cells from cord blood	blood
10	chr1:160533400-160535400	ZNF genes & repeats	GM12878-XiMat	blood
11	chr1:160533600-160534800	Strong transcription	Primary hematopoietic stem cells	blood
12	chr1:160533600-160534800	Genic enhancers	Primary T killer naive cells fromperipheralblood	blood
13	chr1:160533600-160535400	Strong transcription	Primary B cells from peripheral blood	blood
14	chr1:160533600-160536000	Genic enhancers	Primary T regulatory cells fromperipheralblood	blood
15	chr1:160533800-160537600	Enhancers	Primary T helper cells fromperipheralblood	blood
16	chr1:160534000-160535200	Strong transcription	Primary T cells fromperipheralblood	blood
17	chr1:160534200-160535000	Genic enhancers	Monocytes-CD14+_RO01746	blood
18	chr1:160534200-160536800	Enhancers	Primary T helper naive cells fromperipheralblood	blood
19	chr1:160534200-160537400	Enhancers	Primary T cells from cord blood	blood
20	chr1:160534400-160534800	Strong transcription	Primary hematopoietic stem cells short term culture	blood
21	chr1:160534400-160534800	Flanking Active TSS	Primary T helper cells PMA-I stimulated	--
22	chr1:160534400-160535400	Genic enhancers	Primary monocytes fromperipheralblood	blood
23	chr1:160534400-160537400	Enhancers	Primary T cells effector/memory enriched fromperipheralblood	blood
24	chr1:160534600-160534800	Enhancers	Primary mononuclear cells fromperipheralblood	Blood
25	chr1:160534600-160535200	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
26	chr1:160534600-160535200	Weak transcription	Fetal Thymus	thymus
27	chr1:160534600-160535800	Enhancers	Primary T helper naive cells from peripheral blood	blood
28	chr1:160534600-160536800	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
29	chr1:160534600-160537400	Enhancers	Primary T killer memory cells from peripheral blood	blood
30	chr1:160534600-160538200	Enhancers	Fetal Lung	lung

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