Variant report

Variant	rs3978728
Chromosome Location	chr3:177660689-177660690
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:177534496..177537087-chr3:177660637..177662503,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000231574	Chromatin interaction

Extended variants
information (count: 54 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:53)

rs_ID	r²[population]
rs1075544	0.82[ASN][1000 genomes]
rs10936960	0.82[ASN][1000 genomes]
rs11919677	0.83[CHB][hapmap];0.91[JPT][hapmap];0.84[ASN][1000 genomes]
rs11920776	0.87[CEU][hapmap];0.83[CHB][hapmap];0.91[JPT][hapmap];0.85[YRI][hapmap];0.82[AMR][1000 genomes];0.83[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs11922170	0.83[ASN][1000 genomes]
rs12489750	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12492069	0.98[ASN][1000 genomes]
rs12492409	1.00[CEU][hapmap];0.91[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12496207	0.80[ASN][1000 genomes]
rs12497387	0.96[ASN][1000 genomes]
rs13062823	1.00[CEU][hapmap];0.91[CHB][hapmap];1.00[JPT][hapmap];0.92[YRI][hapmap];0.87[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs13066104	0.82[ASN][1000 genomes]
rs13074448	0.82[ASN][1000 genomes]
rs13075342	0.96[ASN][1000 genomes]
rs13087011	0.81[ASN][1000 genomes]
rs13314585	0.81[ASN][1000 genomes]
rs1421157	0.82[ASN][1000 genomes]
rs1421158	0.82[ASN][1000 genomes]
rs1421160	0.82[ASN][1000 genomes]
rs1421161	0.82[ASN][1000 genomes]
rs1421162	0.82[ASN][1000 genomes]
rs1421163	0.90[ASN][1000 genomes]
rs1421164	0.91[ASN][1000 genomes]
rs1421169	0.96[ASN][1000 genomes]
rs1421170	0.82[AMR][1000 genomes];0.83[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1421173	0.82[ASN][1000 genomes]
rs1582399	0.87[ASN][1000 genomes]
rs16828811	0.86[CEU][hapmap];1.00[CHB][hapmap];0.90[JPT][hapmap];0.96[ASN][1000 genomes]
rs16828819	0.96[ASN][1000 genomes]
rs1861886	0.98[ASN][1000 genomes]
rs1895068	0.82[ASN][1000 genomes]
rs1895075	0.81[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs34300091	0.82[AMR][1000 genomes];0.83[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs34534264	0.90[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs34603970	0.80[ASN][1000 genomes]
rs34969108	0.97[ASN][1000 genomes]
rs35494413	0.97[ASN][1000 genomes]
rs35569214	0.97[ASN][1000 genomes]
rs35751119	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs57315928	0.82[ASN][1000 genomes]
rs6769109	0.82[ASN][1000 genomes]
rs6779965	0.81[EUR][1000 genomes]
rs6786110	0.82[CHB][hapmap];0.91[JPT][hapmap];0.82[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs6804905	0.82[ASN][1000 genomes]
rs737553	0.82[ASN][1000 genomes]
rs737555	0.81[ASN][1000 genomes]
rs7616735	0.80[AFR][1000 genomes];0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7619802	0.82[CEU][hapmap];1.00[CHB][hapmap];0.91[JPT][hapmap];0.96[ASN][1000 genomes]
rs7645977	0.80[ASN][1000 genomes]
rs7648771	0.80[EUR][1000 genomes]
rs9838142	0.82[ASN][1000 genomes]
rs9862300	0.82[ASN][1000 genomes]
rs9875424	0.82[ASN][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv931055	chr3:177229521-177889872	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:2 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:177653600-177662200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
2	chr3:177659400-177661200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links