Variant report

Variant	rs6897135
Chromosome Location	chr5:36272564-36272565
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	chr5:36272403..36275223-chr5:36277459..36279344,2	K562	blood:

Extended variants
information (count: 49 )
Associated
traits (count: 2 )

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

rs_ID	r²[population]
rs10072305	1.00[CEU][hapmap]
rs10076487	1.00[CEU][hapmap]
rs10080095	0.81[EUR][1000 genomes]
rs10214173	0.81[EUR][1000 genomes]
rs10223062	1.00[CEU][hapmap];0.81[EUR][1000 genomes]
rs1035480	1.00[CEU][hapmap];0.81[EUR][1000 genomes]
rs10805611	0.81[EUR][1000 genomes]
rs10805612	1.00[CEU][hapmap];0.81[EUR][1000 genomes]
rs11746720	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11750947	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs13155313	0.86[AFR][1000 genomes];0.90[EUR][1000 genomes]
rs13175536	0.88[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.88[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];0.90[MEX][hapmap];0.94[MKK][hapmap];1.00[TSI][hapmap];0.89[YRI][hapmap];0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs13360059	0.81[EUR][1000 genomes]
rs1345776	1.00[CEU][hapmap];0.81[EUR][1000 genomes]
rs1363843	1.00[CEU][hapmap];0.81[EUR][1000 genomes]
rs1363844	1.00[CEU][hapmap];0.81[EUR][1000 genomes]
rs1423223	1.00[CEU][hapmap];0.81[EUR][1000 genomes]
rs1423224	1.00[CEU][hapmap]
rs1423226	1.00[CEU][hapmap];0.81[EUR][1000 genomes]
rs155544	1.00[CEU][hapmap]
rs1862543	1.00[CEU][hapmap];0.81[EUR][1000 genomes]
rs1862544	1.00[CEU][hapmap];0.81[EUR][1000 genomes]
rs2362980	1.00[CEU][hapmap];0.81[EUR][1000 genomes]
rs33664	1.00[CEU][hapmap]
rs34946590	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs3804435	1.00[CEU][hapmap]
rs4869473	1.00[CEU][hapmap];0.81[EUR][1000 genomes]
rs4869474	1.00[CEU][hapmap];0.81[EUR][1000 genomes]
rs4869634	0.81[EUR][1000 genomes]
rs4869635	1.00[CEU][hapmap];0.81[EUR][1000 genomes]
rs6451268	0.94[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.88[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.90[MEX][hapmap];0.85[MKK][hapmap];1.00[TSI][hapmap];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6451270	1.00[CEU][hapmap];0.81[EUR][1000 genomes]
rs6869599	1.00[CEU][hapmap];0.81[EUR][1000 genomes]
rs6874389	1.00[CEU][hapmap];0.81[EUR][1000 genomes]
rs6881086	1.00[CEU][hapmap]
rs6884019	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6886098	1.00[CEU][hapmap];0.81[EUR][1000 genomes]
rs6892199	1.00[CEU][hapmap];0.81[EUR][1000 genomes]
rs7705209	1.00[CEU][hapmap];0.81[EUR][1000 genomes]
rs7705858	1.00[CEU][hapmap];0.81[EUR][1000 genomes]
rs7705985	1.00[CEU][hapmap];0.81[EUR][1000 genomes]
rs7716771	1.00[CEU][hapmap];1.00[CHB][hapmap];0.88[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.93[TSI][hapmap];0.87[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7722251	1.00[CEU][hapmap];0.81[EUR][1000 genomes]
rs7724057	1.00[CEU][hapmap];0.81[EUR][1000 genomes]
rs878607	1.00[CEU][hapmap];0.81[EUR][1000 genomes]

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	nsv830262	chr5:36074311-36293872	Weak transcription Enhancers Flanking Active TSS Strong transcription Genic enhancers Active TSS 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	63 gene(s)	inside rSNPs	diseases
2	nsv1015638	chr5:36203646-36312576	Active TSS Weak transcription Flanking Active TSS Strong transcription Enhancers Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	44 gene(s)	inside rSNPs	diseases
3	nsv881598	chr5:36248752-36382802	Weak transcription Enhancers Active TSS Flanking Active TSS Strong transcription Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
4	esv2762515	chr5:36270305-36272663	Weak transcription Enhancers	Chromatin interactive region	n/a	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs6897135	RANBP3L	cis	brain	seeQTL
rs6897135	KYNU	trans	lymphoblastoid	RTeQTL

Chromatin state (count:13 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:36251800-36274400	Weak transcription	Brain Anterior Caudate	brain
2	chr5:36254000-36274400	Weak transcription	Aorta	Aorta
3	chr5:36261600-36277000	Weak transcription	Pancreas	Pancrea
4	chr5:36262800-36283800	Weak transcription	Brain Inferior Temporal Lobe	brain
5	chr5:36266600-36274400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
6	chr5:36269600-36279600	Weak transcription	Brain Angular Gyrus	brain
7	chr5:36269800-36275400	Enhancers	Liver	Liver
8	chr5:36271000-36272600	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
9	chr5:36271200-36272800	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
10	chr5:36271200-36276800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
11	chr5:36271400-36273400	Weak transcription	Adipose Nuclei	Adipose
12	chr5:36272400-36272600	Enhancers	Brain Substantia Nigra	brain
13	chr5:36272400-36272600	Enhancers	Fetal Lung	lung

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