Variant report

Variant	rs10489362
Chromosome Location	chr1:168720171-168720172
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	REST	chr1:168720093-168721755	H1-neurons	neurons:	n/a	chr1:168721674-168721681

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr1:168717969..168723195-chr1:169075012..169079192,7	MCF-7	breast:

Variant related genes	Relation type
ENSG00000221578	TF binding region
ENSG00000143153	Chromatin interaction

Extended variants
information (count: 68 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:66)

rs_ID	r²[population]
rs1018454	0.89[ASN][1000 genomes]
rs10800378	0.99[ASN][1000 genomes]
rs10918970	0.90[ASN][1000 genomes]
rs10918972	0.84[ASN][1000 genomes]
rs12563398	0.89[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs12567476	0.86[EUR][1000 genomes]
rs12568207	0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs12724380	0.82[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs12728858	0.88[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs12739280	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12742262	0.84[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs12755391	0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs17569416	0.89[CEU][hapmap];0.88[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1765517	0.86[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs1989300	0.89[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2206288	0.89[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2206289	0.89[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2206290	0.89[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2223478	0.88[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2744659	0.89[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2744661	0.89[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2744666	0.92[JPT][hapmap]
rs2786758	0.98[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2786759	1.00[JPT][hapmap];0.99[ASN][1000 genomes]
rs2786760	0.82[ASN][1000 genomes]
rs35723976	0.98[AFR][1000 genomes];0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs472668	0.89[CEU][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];0.83[AMR][1000 genomes];0.88[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs484025	0.88[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs485109	0.88[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs485187	0.92[JPT][hapmap]
rs485855	0.88[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs489585	0.84[ASN][1000 genomes]
rs494189	0.92[JPT][hapmap];0.81[ASN][1000 genomes]
rs525275	0.92[AFR][1000 genomes];0.81[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs534139	0.89[CEU][hapmap];0.88[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs538714	0.89[CEU][hapmap];0.88[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs542198	0.89[CEU][hapmap];0.88[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs552859	1.00[CEU][hapmap];0.89[CHB][hapmap];1.00[JPT][hapmap];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs555676	0.93[AFR][1000 genomes];0.83[AMR][1000 genomes];0.88[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs567067	0.92[JPT][hapmap]
rs582986	0.87[ASN][1000 genomes]
rs609629	0.91[AFR][1000 genomes];0.81[ASN][1000 genomes]
rs610403	0.91[AFR][1000 genomes];0.81[ASN][1000 genomes]
rs623949	0.81[ASN][1000 genomes]
rs625712	0.88[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs627872	0.89[CEU][hapmap];0.88[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs628718	0.92[JPT][hapmap];0.89[ASN][1000 genomes]
rs6427147	0.91[ASN][1000 genomes]
rs6427148	0.89[CEU][hapmap];0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs6427149	0.83[ASN][1000 genomes]
rs6427150	0.99[ASN][1000 genomes]
rs655128	0.85[CEU][hapmap];0.88[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs656919	0.87[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs6656646	0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs6675239	1.00[ASN][1000 genomes]
rs6690929	0.99[ASN][1000 genomes]
rs6697889	0.87[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs6701299	0.89[CEU][hapmap];0.89[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs672950	0.93[AFR][1000 genomes];0.83[AMR][1000 genomes];0.88[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs686610	0.91[AFR][1000 genomes];0.80[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs734123	0.89[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7534485	0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs760912	0.89[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs760913	0.89[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs761519	0.89[CHB][hapmap];0.92[JPT][hapmap];0.89[ASN][1000 genomes]
rs763433	0.89[EUR][1000 genomes];0.84[ASN][1000 genomes]

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	nsv869415	chr1:168467284-169153863	Flanking Active TSS Weak transcription Enhancers Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Genic enhancers Strong transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	44 gene(s)	inside rSNPs	diseases
2	nsv831847	chr1:168669877-168850129	Flanking Active TSS Enhancers Weak transcription Active TSS Bivalent Enhancer Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:6 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:168701800-168720400	Weak transcription	Placenta Amnion	Placenta Amnion
2	chr1:168711200-168724200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
3	chr1:168719800-168721200	Enhancers	Pancreatic Islets	Pancreatic Islet
4	chr1:168720000-168721600	Enhancers	Colon Smooth Muscle	Colon
5	chr1:168720000-168721600	Enhancers	Hela-S3	cervix
6	chr1:168720000-168722000	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell

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