Variant report

Variant	rs283083
Chromosome Location	chr6:118604224-118604225
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 57 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:52)

rs_ID	r²[population]
rs11153725	0.87[MEX][hapmap]
rs12212582	0.83[YRI][hapmap]
rs1413845	0.83[MEX][hapmap]
rs17079862	0.91[CEU][hapmap];0.84[CHB][hapmap];0.83[EUR][1000 genomes]
rs176014	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes];0.86[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1874082	0.90[AFR][1000 genomes];0.81[EUR][1000 genomes]
rs190756	0.82[ASW][hapmap];0.95[CHB][hapmap];0.90[CHD][hapmap];0.84[MEX][hapmap];0.95[YRI][hapmap]
rs1923282	1.00[CEU][hapmap];0.94[CHB][hapmap]
rs281866	0.95[CEU][hapmap];0.95[CHB][hapmap];0.88[JPT][hapmap];1.00[YRI][hapmap];0.83[AFR][1000 genomes];0.83[AMR][1000 genomes];0.94[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs281868	0.88[JPT][hapmap];0.82[ASN][1000 genomes]
rs281869	0.95[CEU][hapmap];0.95[CHB][hapmap];0.95[CHD][hapmap];0.86[GIH][hapmap];0.83[JPT][hapmap];0.81[TSI][hapmap];0.84[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs281872	1.00[CEU][hapmap];0.95[CHB][hapmap];0.88[JPT][hapmap];1.00[YRI][hapmap];0.82[AFR][1000 genomes];0.83[AMR][1000 genomes];0.94[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs283040	0.82[YRI][hapmap]
rs283042	0.83[YRI][hapmap]
rs283044	0.83[YRI][hapmap]
rs283045	0.83[YRI][hapmap]
rs283046	0.83[YRI][hapmap]
rs283049	0.83[YRI][hapmap]
rs283050	0.81[YRI][hapmap]
rs283067	0.87[EUR][1000 genomes]
rs283077	0.88[JPT][hapmap];0.81[ASN][1000 genomes]
rs283080	0.86[ASN][1000 genomes]
rs283081	0.80[GIH][hapmap];0.88[JPT][hapmap];0.86[ASN][1000 genomes]
rs283082	0.80[GIH][hapmap];0.88[JPT][hapmap];0.87[ASN][1000 genomes]
rs283084	0.88[JPT][hapmap];0.86[ASN][1000 genomes]
rs283085	0.88[JPT][hapmap];0.86[ASN][1000 genomes]
rs283086	0.88[JPT][hapmap];0.84[ASN][1000 genomes]
rs283087	0.84[ASN][1000 genomes]
rs283088	0.88[JPT][hapmap];0.83[ASN][1000 genomes]
rs283091	0.80[GIH][hapmap];0.88[JPT][hapmap];0.83[ASN][1000 genomes]
rs2883849	0.82[ASW][hapmap];0.95[CEU][hapmap];0.95[CHB][hapmap];0.88[CHD][hapmap];0.88[GIH][hapmap];0.87[MEX][hapmap];0.88[TSI][hapmap];0.84[EUR][1000 genomes]
rs372237	0.80[GIH][hapmap];0.88[JPT][hapmap];0.87[ASN][1000 genomes]
rs387266	0.87[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs387945	0.81[YRI][hapmap]
rs397445	0.83[YRI][hapmap]
rs413876	0.95[CEU][hapmap];0.95[CHB][hapmap];0.95[YRI][hapmap];0.82[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs419592	0.83[YRI][hapmap]
rs422833	0.88[JPT][hapmap];0.87[ASN][1000 genomes]
rs427027	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs445566	0.82[ASW][hapmap]
rs447193	0.88[JPT][hapmap];0.86[ASN][1000 genomes]
rs450093	0.91[CEU][hapmap];0.94[CHB][hapmap];0.95[YRI][hapmap];0.87[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs4945618	0.91[CEU][hapmap];0.90[CHB][hapmap];0.84[EUR][1000 genomes]
rs4946333	0.88[JPT][hapmap];0.82[ASN][1000 genomes]
rs4946336	0.83[YRI][hapmap]
rs6912208	0.88[JPT][hapmap];0.82[ASN][1000 genomes]
rs7762823	0.90[CHB][hapmap];0.81[CHD][hapmap];0.96[MEX][hapmap]
rs89107	0.88[JPT][hapmap];0.82[ASN][1000 genomes]
rs9320646	0.95[CEU][hapmap];0.95[CHB][hapmap];0.83[JPT][hapmap];0.90[YRI][hapmap];0.85[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9385038	0.95[CEU][hapmap];0.95[CHB][hapmap];0.83[JPT][hapmap];0.82[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9401060	0.88[JPT][hapmap];0.81[ASN][1000 genomes]
rs9489326	0.90[CHB][hapmap];0.81[CHD][hapmap];0.96[MEX][hapmap]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv530526	chr6:118027339-118718476	Weak transcription Enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
2	nsv1030089	chr6:118436482-118604516	Enhancers Weak transcription Flanking Active TSS Strong transcription Active TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
3	nsv538427	chr6:118436482-118604516	Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Strong transcription Bivalent Enhancer Genic enhancers	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
4	nsv532051	chr6:118551027-119044197	Active TSS Enhancers Weak transcription Strong transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
5	nsv1020463	chr6:118593028-119146363	Enhancers Weak transcription Flanking Active TSS Strong transcription Genic enhancers ZNF genes & repeats Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	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
rs283083	C6orf204	cis	cerebellum	SCAN

Chromatin state (count:9 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:118598800-118604600	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
2	chr6:118601600-118606200	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
3	chr6:118601800-118605400	Weak transcription	Cortex derived primary cultured neurospheres	brain
4	chr6:118601800-118606400	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
5	chr6:118602800-118606400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
6	chr6:118603000-118605000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
7	chr6:118603000-118606400	Enhancers	Fetal Heart	heart
8	chr6:118603200-118604800	Weak transcription	Brain Inferior Temporal Lobe	brain
9	chr6:118603400-118610000	Weak transcription	iPS-18 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links