Variant report

Variant	rs10104568
Chromosome Location	chr8:59439825-59439826
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr8:59433987..59437389-chr8:59439305..59441373,3	K562	blood:
2	chr8:59438563..59440358-chr8:59464791..59467161,2	MCF-7	breast:
3	chr8:59433987..59436309-chr8:59439305..59441373,2	K562	blood:
4	chr8:59437757..59440570-chr8:59464434..59466079,2	K562	blood:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-SDCBP-1	chr8:59439455-59439891	XLOC_006811
2	lnc-SDCBP-1	chr8:59439455-59439891	XLOC_006811

Variant related genes	Relation type
ENSG00000137575	Chromatin interaction

Extended variants
information (count: 58 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:56)

rs_ID	r²[population]
rs10085973	0.82[JPT][hapmap]
rs10090425	0.82[JPT][hapmap]
rs10090964	0.83[CHB][hapmap];0.90[JPT][hapmap]
rs10099153	0.82[JPT][hapmap]
rs10099912	0.82[JPT][hapmap]
rs10102709	0.82[CHB][hapmap];0.90[JPT][hapmap]
rs10104292	0.81[JPT][hapmap]
rs10111052	0.82[JPT][hapmap]
rs10113750	0.82[CHB][hapmap];0.89[JPT][hapmap]
rs1023649	1.00[CEU][hapmap];1.00[CHB][hapmap];0.90[JPT][hapmap];0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1023650	1.00[CHB][hapmap];0.90[JPT][hapmap];0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1023651	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1023652	1.00[CEU][hapmap];0.95[EUR][1000 genomes]
rs10504256	0.82[JPT][hapmap]
rs1125226	1.00[CEU][hapmap];1.00[CHB][hapmap];0.90[JPT][hapmap];0.88[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11776003	0.82[CHB][hapmap];0.90[JPT][hapmap]
rs11783174	0.82[JPT][hapmap]
rs12541539	0.89[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12543344	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[YRI][hapmap];0.92[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12674568	0.82[CHB][hapmap];0.90[JPT][hapmap]
rs12676593	0.82[JPT][hapmap]
rs12677290	0.81[JPT][hapmap]
rs12680996	0.82[CHB][hapmap];0.90[JPT][hapmap];0.81[YRI][hapmap]
rs13251066	0.95[CHB][hapmap]
rs13251096	1.00[CEU][hapmap];1.00[CHB][hapmap];0.90[JPT][hapmap];0.87[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs13263039	0.95[EUR][1000 genomes]
rs1427162	1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1457042	0.86[CHB][hapmap]
rs1582824	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1834733	0.89[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1991359	0.83[CHB][hapmap];0.90[JPT][hapmap]
rs2634527	0.85[CHB][hapmap];0.90[JPT][hapmap];0.86[ASN][1000 genomes]
rs28650441	0.80[ASN][1000 genomes]
rs3903445	1.00[CEU][hapmap];1.00[CHB][hapmap];0.90[JPT][hapmap];0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4282557	0.81[JPT][hapmap]
rs4400367	0.82[JPT][hapmap]
rs4573256	0.81[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4737501	0.92[EUR][1000 genomes]
rs4738687	0.85[CHB][hapmap]
rs4738690	0.97[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4738691	0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6471729	0.83[CHB][hapmap];0.90[JPT][hapmap];0.80[ASN][1000 genomes]
rs6981601	0.82[CHB][hapmap];0.90[JPT][hapmap]
rs6984439	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[YRI][hapmap];0.94[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6987187	0.86[CHB][hapmap];0.90[JPT][hapmap];0.87[ASN][1000 genomes]
rs7005296	0.94[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7009248	0.83[CHB][hapmap];0.90[JPT][hapmap];0.80[ASN][1000 genomes]
rs7009374	0.83[CHB][hapmap];0.90[JPT][hapmap];0.80[ASN][1000 genomes]
rs7011095	0.82[JPT][hapmap]
rs7016868	0.95[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7817515	0.80[ASN][1000 genomes]
rs7825996	0.81[JPT][hapmap]
rs7827910	0.81[JPT][hapmap]
rs7833904	1.00[CEU][hapmap];1.00[CHB][hapmap];0.90[JPT][hapmap];0.88[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9297997	0.81[JPT][hapmap]
rs9297998	0.81[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv890938	chr8:59355053-59809785	Enhancers Strong transcription Flanking Active TSS Weak transcription Genic enhancers Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	21 gene(s)	inside rSNPs	diseases
2	nsv6212	chr8:59435671-59451750	Weak transcription Enhancers ZNF genes & repeats Active TSS Flanking Active TSS	Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	n/a

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr8:59435400-59442400	Weak transcription	Gastric	stomach
2	chr8:59439200-59441400	Enhancers	Hela-S3	cervix
3	chr8:59439600-59440400	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
4	chr8:59439600-59440800	Enhancers	Fetal Adrenal Gland	Adrenal Gland
5	chr8:59439600-59441200	Enhancers	Fetal Heart	heart
6	chr8:59439600-59442000	Weak transcription	Placenta Amnion	Placenta Amnion
7	chr8:59439800-59440200	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
8	chr8:59439800-59441200	Weak transcription	Placenta	Placenta
9	chr8:59439800-59441200	Weak transcription	Right Atrium	heart
10	chr8:59439800-59442000	Weak transcription	Aorta	Aorta
11	chr8:59439800-59442000	Weak transcription	Left Ventricle	heart

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