Variant report

Variant	rs151607
Chromosome Location	chr1:160585706-160585707
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 49 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:45)

rs_ID	r²[population]
rs1055880	0.87[CEU][hapmap]
rs1061217	0.91[CEU][hapmap]
rs11265442	0.89[CEU][hapmap]
rs11265452	0.92[CEU][hapmap];1.00[JPT][hapmap];0.87[EUR][1000 genomes]
rs11583402	0.91[CEU][hapmap]
rs11585738	0.88[CEU][hapmap]
rs11590035	0.84[CEU][hapmap]
rs12144628	0.81[CEU][hapmap]
rs12402879	0.89[CEU][hapmap]
rs12728784	0.88[CEU][hapmap]
rs1394078	0.88[CEU][hapmap];1.00[CHB][hapmap];0.82[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs1503854	0.85[JPT][hapmap]
rs1572382	0.89[CEU][hapmap]
rs164283	0.81[JPT][hapmap]
rs16832283	0.92[CEU][hapmap];1.00[JPT][hapmap];0.89[EUR][1000 genomes]
rs17381453	0.88[CEU][hapmap]
rs17385407	0.88[CEU][hapmap]
rs1809963	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.90[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs1998651	0.89[CEU][hapmap]
rs2025516	0.80[CEU][hapmap]
rs2025517	0.81[CEU][hapmap]
rs2083128	0.88[CEU][hapmap]
rs2099604	0.82[CEU][hapmap]
rs2753260	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs3733264	0.88[CEU][hapmap]
rs3733265	0.88[CEU][hapmap]
rs3733266	0.88[CEU][hapmap]
rs3766385	0.88[CEU][hapmap]
rs3766388	0.88[CEU][hapmap]
rs3766389	0.88[CEU][hapmap]
rs3816146	0.88[CEU][hapmap]
rs5002947	0.83[CEU][hapmap]
rs55841347	0.91[AMR][1000 genomes];0.90[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs56168064	0.94[AMR][1000 genomes];0.94[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs56367214	0.91[AMR][1000 genomes];0.90[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs61801567	0.82[EUR][1000 genomes]
rs6662093	0.84[EUR][1000 genomes]
rs6668760	0.92[CEU][hapmap]
rs6670721	0.83[CEU][hapmap]
rs6687641	0.92[CEU][hapmap]
rs6692382	0.92[CEU][hapmap]
rs7547054	0.88[CEU][hapmap]
rs7550771	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs912582	0.88[CEU][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.90[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs977019	0.92[CEU][hapmap]

Variant overlapped rSNPs/rCNVs (count:4 , 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	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
3	esv1822379	chr1:160545332-160831143	Enhancers Active TSS Flanking Active TSS Weak transcription Transcr. at gene 5' and 3' ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Strong transcription Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
4	nsv831714	chr1:160581168-160776809	Weak transcription Enhancers Flanking Active TSS Strong transcription Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs151607	CD84	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:25 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:160576200-160591400	Weak transcription	Spleen	Spleen
2	chr1:160576800-160591400	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
3	chr1:160577000-160590800	Weak transcription	Primary hematopoietic stem cells short term culture	blood
4	chr1:160578000-160587400	Strong transcription	Primary B cells from peripheral blood	blood
5	chr1:160579000-160589400	Strong transcription	GM12878-XiMat	blood
6	chr1:160579800-160593200	Weak transcription	Sigmoid Colon	Sigmoid Colon
7	chr1:160582200-160591800	Genic enhancers	Primary T helper cells PMA-I stimulated	--
8	chr1:160584400-160585800	Genic enhancers	Primary T regulatory cells fromperipheralblood	blood
9	chr1:160584400-160589800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
10	chr1:160584400-160594600	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
11	chr1:160584600-160587600	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
12	chr1:160584800-160587400	Strong transcription	Fetal Thymus	thymus
13	chr1:160584800-160591400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
14	chr1:160585000-160586200	Strong transcription	Primary T cells from cord blood	blood
15	chr1:160585200-160585800	Genic enhancers	Primary T helper cells fromperipheralblood	blood
16	chr1:160585200-160586600	Strong transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
17	chr1:160585200-160587600	Strong transcription	Primary T cells fromperipheralblood	blood
18	chr1:160585200-160592400	Genic enhancers	Primary T helper 17 cells PMA-I stimulated	--
19	chr1:160585400-160585800	Enhancers	Primary T helper naive cells from peripheral blood	blood
20	chr1:160585400-160586000	Strong transcription	Primary B cells from cord blood	blood
21	chr1:160585400-160586000	Genic enhancers	Thymus	Thymus
22	chr1:160585400-160586600	Genic enhancers	Primary T helper memory cells from peripheral blood 1	blood
23	chr1:160585400-160589800	Genic enhancers	Primary T helper memory cells from peripheral blood 2	blood
24	chr1:160585600-160586000	Strong transcription	Primary T killer memory cells from peripheral blood	blood
25	chr1:160585600-160594800	Weak transcription	K562	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links