Variant report

Variant	rs17715588
Chromosome Location	chr8:9169549-9169550
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr8:9161635..9164243-chr8:9166726..9169723,2	K562	blood:
2	chr8:9161840..9164243-chr8:9168223..9171160,2	K562	blood:

Extended variants
information (count: 55 )
Associated
traits (count: 1 )

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

rs_ID	r²[population]
rs10099512	0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs10106829	0.83[ASN][1000 genomes]
rs11778774	0.83[ASN][1000 genomes]
rs11779870	1.00[CHB][hapmap]
rs11781511	0.83[ASN][1000 genomes]
rs11990096	1.00[CHB][hapmap]
rs13264007	0.83[ASN][1000 genomes]
rs13265179	0.83[ASN][1000 genomes]
rs13274716	0.83[ASN][1000 genomes]
rs13279173	0.88[CEU][hapmap];1.00[CHB][hapmap];0.96[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs1461729	0.83[ASN][1000 genomes]
rs17661330	1.00[CHB][hapmap]
rs17716118	0.88[CEU][hapmap];1.00[CHB][hapmap];0.91[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs2054345	0.83[ASN][1000 genomes]
rs2126259	0.83[ASN][1000 genomes]
rs2126260	0.83[ASN][1000 genomes]
rs2126261	1.00[CHB][hapmap]
rs2126263	0.83[ASN][1000 genomes]
rs2126264	0.83[ASN][1000 genomes]
rs2169385	0.83[ASN][1000 genomes]
rs2169387	0.83[ASN][1000 genomes]
rs330092	1.00[CHB][hapmap];0.83[ASN][1000 genomes]
rs34025891	0.83[ASN][1000 genomes]
rs34271262	0.83[ASN][1000 genomes]
rs34906420	0.83[ASN][1000 genomes]
rs35899262	0.83[ASN][1000 genomes]
rs370720	0.86[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs4240624	0.83[ASN][1000 genomes]
rs4332138	0.83[ASN][1000 genomes]
rs4841132	1.00[CHB][hapmap];0.83[ASN][1000 genomes]
rs4841133	0.83[ASN][1000 genomes]
rs58648469	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs60191553	0.83[ASN][1000 genomes]
rs6601299	0.83[ASN][1000 genomes]
rs6984305	1.00[CHB][hapmap];0.83[ASN][1000 genomes]
rs6985493	0.83[ASN][1000 genomes]
rs7002551	1.00[CHB][hapmap]
rs7004769	0.83[ASN][1000 genomes]
rs713286	0.84[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs73535309	0.83[ASN][1000 genomes]
rs7357361	1.00[CHB][hapmap]
rs983308	1.00[CHB][hapmap]
rs983309	1.00[CHB][hapmap];0.83[ASN][1000 genomes]
rs983310	1.00[CHB][hapmap]
rs9987289	1.00[CHB][hapmap];0.83[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:10 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv917117	chr8:8621658-9313799	Active TSS Weak transcription Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Strong transcription Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	43 gene(s)	inside rSNPs	diseases
2	nsv1022468	chr8:8857853-9209167	Enhancers Weak transcription Flanking Active TSS Strong transcription Active TSS Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	31 gene(s)	inside rSNPs	diseases
3	nsv539460	chr8:8857853-9209167	Enhancers Active TSS Weak transcription Strong transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	31 gene(s)	inside rSNPs	diseases
4	nsv817373	chr8:8857854-9361049	Enhancers ZNF genes & repeats Weak transcription Active TSS Strong transcription Flanking Active TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	36 gene(s)	inside rSNPs	diseases
5	nsv949434	chr8:8993551-9318404	Enhancers Weak transcription Strong transcription Bivalent/Poised TSS Flanking Active TSS Active TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	28 gene(s)	inside rSNPs	diseases
6	nsv1018847	chr8:9017110-9216354	Enhancers Weak transcription Flanking Active TSS Strong transcription Active TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
7	nsv1022967	chr8:9023771-9261351	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
8	nsv539462	chr8:9023771-9261351	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS Strong transcription Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
9	nsv530864	chr8:9097498-9914548	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Strong transcription Bivalent Enhancer Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	39 gene(s)	inside rSNPs	diseases
10	nsv497927	chr8:9097611-9544519	Flanking Active TSS Enhancers Strong transcription Weak transcription Bivalent Enhancer ZNF genes & repeats Active TSS Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs17715588	LYRM5	trans	lymphoblastoid	RTeQTL

Chromatin state (count:11 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr8:9153200-9174600	Weak transcription	Right Atrium	heart
2	chr8:9161200-9171200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
3	chr8:9164600-9169800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
4	chr8:9164800-9169800	Weak transcription	NHEK	skin
5	chr8:9165600-9174200	Weak transcription	Psoas Muscle	Psoas
6	chr8:9167600-9175000	Enhancers	Liver	Liver
7	chr8:9167800-9170200	Enhancers	Skeletal Muscle Male	skeletal muscle
8	chr8:9168400-9169600	Weak transcription	Fetal Heart	heart
9	chr8:9168600-9169600	Weak transcription	Left Ventricle	heart
10	chr8:9169400-9169600	Enhancers	Skeletal Muscle Female	skeletal muscle
11	chr8:9169400-9170000	Enhancers	Right Ventricle	heart

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links