Variant report

Variant	rs840699
Chromosome Location	chr2:177686466-177686467
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	CTCF	chr2:177686320-177686470	GM12864	blood:	n/a	n/a
2	CTCF	chr2:177686128-177686469	K562	blood:	n/a	chr2:177686254-177686272 chr2:177686249-177686270 chr2:177686227-177686236 chr2:177686259-177686267

Variant related genes	Relation type
ENSG00000230552	TF binding region

Extended variants
information (count: 43 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:40)

rs_ID	r²[population]
rs10181816	1.00[CHB][hapmap]
rs10184702	1.00[CHB][hapmap]
rs10197209	1.00[CHB][hapmap]
rs10497573	1.00[CHB][hapmap]
rs10930765	1.00[JPT][hapmap]
rs10930767	1.00[JPT][hapmap]
rs12469347	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs12616782	1.00[JPT][hapmap]
rs12693105	1.00[CHB][hapmap]
rs13005005	1.00[JPT][hapmap]
rs13421731	1.00[JPT][hapmap]
rs1355845	1.00[JPT][hapmap]
rs1437725	1.00[CHB][hapmap]
rs1513870	1.00[JPT][hapmap]
rs1513886	1.00[CHB][hapmap]
rs1533303	1.00[CHB][hapmap]
rs1534472	1.00[CHB][hapmap]
rs1545138	1.00[CHB][hapmap]
rs16864479	1.00[CHB][hapmap]
rs16864736	1.00[JPT][hapmap]
rs17628074	1.00[JPT][hapmap]
rs17679370	1.00[JPT][hapmap]
rs1814826	0.81[ASN][1000 genomes]
rs1866134	1.00[JPT][hapmap]
rs4893917	1.00[CHB][hapmap]
rs6707899	1.00[JPT][hapmap]
rs6760271	1.00[JPT][hapmap]
rs7583729	0.81[ASN][1000 genomes]
rs7588841	1.00[CHB][hapmap];0.95[GIH][hapmap];1.00[JPT][hapmap]
rs840685	0.82[ASN][1000 genomes]
rs840691	0.89[AFR][1000 genomes];0.88[ASN][1000 genomes]
rs840698	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[YRI][hapmap];0.97[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs840700	0.92[AFR][1000 genomes];0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs840701	0.93[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs840702	0.92[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs840703	0.95[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs840704	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs840706	0.81[ASN][1000 genomes]
rs858958	0.98[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs860864	0.97[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv527737	chr2:177538266-177692572	Weak transcription Enhancers Active TSS ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
2	nsv583686	chr2:177538266-177692572	Enhancers Weak transcription Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
3	nsv1006500	chr2:177548521-177707097	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Active TSS Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:7 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:177680000-177689000	Weak transcription	Primary T helper cells PMA-I stimulated	--
2	chr2:177680200-177689000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
3	chr2:177682000-177689000	Weak transcription	Primary T cells from cord blood	blood
4	chr2:177683200-177688800	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
5	chr2:177685800-177686800	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
6	chr2:177685800-177687200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
7	chr2:177686400-177687600	Enhancers	Primary T killer naive cells fromperipheralblood	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links