Variant report

Variant	rs1033686
Chromosome Location	chr14:68362510-68362511
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr14:68356714..68362753-chr14:69260089..69264133,5	MCF-7	breast:
2	chr14:68361251..68364282-chr14:68364886..68367550,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000185650	Chromatin interaction

Extended variants
information (count: 56 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:55)

rs_ID	r²[population]
rs11158716	0.83[CEU][hapmap]
rs11621638	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[AFR][1000 genomes];0.90[EUR][1000 genomes]
rs11622135	0.83[CEU][hapmap];0.81[EUR][1000 genomes]
rs11624609	0.83[CEU][hapmap];0.80[EUR][1000 genomes]
rs11626809	1.00[ASW][hapmap];0.93[GIH][hapmap];0.81[EUR][1000 genomes]
rs11848769	0.82[CEU][hapmap];0.81[EUR][1000 genomes]
rs11850946	0.83[CEU][hapmap];0.83[EUR][1000 genomes]
rs11852208	0.80[EUR][1000 genomes]
rs12432558	0.81[GIH][hapmap]
rs12435554	0.83[CEU][hapmap];0.85[EUR][1000 genomes]
rs12437276	0.81[EUR][1000 genomes]
rs12878157	1.00[ASW][hapmap];1.00[LWK][hapmap]
rs12881114	1.00[ASW][hapmap]
rs1543391	0.82[GIH][hapmap]
rs17192558	0.83[CEU][hapmap];1.00[GIH][hapmap];0.80[TSI][hapmap];0.83[EUR][1000 genomes]
rs17192586	0.83[CEU][hapmap];1.00[GIH][hapmap];0.80[TSI][hapmap];0.83[EUR][1000 genomes]
rs17783304	0.83[CEU][hapmap];0.83[EUR][1000 genomes]
rs181565	0.82[GIH][hapmap]
rs181570	0.82[GIH][hapmap]
rs1950764	1.00[ASW][hapmap];1.00[CHB][hapmap];0.96[GIH][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];0.96[TSI][hapmap];0.93[AMR][1000 genomes];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2038565	0.83[CEU][hapmap]
rs34050208	0.88[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs34274745	1.00[ASN][1000 genomes]
rs34558039	1.00[AFR][1000 genomes]
rs34588410	0.81[EUR][1000 genomes]
rs34723132	0.85[EUR][1000 genomes]
rs7145044	0.86[CEU][hapmap];0.85[EUR][1000 genomes]
rs7149482	0.82[GIH][hapmap]
rs7151917	0.85[EUR][1000 genomes]
rs7155985	0.85[EUR][1000 genomes]
rs7160115	0.83[CEU][hapmap]
rs72725106	0.81[EUR][1000 genomes]
rs72725112	0.81[EUR][1000 genomes]
rs72725119	0.88[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs72725138	1.00[AFR][1000 genomes];0.88[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs72725141	0.85[EUR][1000 genomes]
rs72725149	0.83[EUR][1000 genomes]
rs72725151	0.81[EUR][1000 genomes]
rs72725153	0.81[EUR][1000 genomes]
rs72725154	0.90[EUR][1000 genomes]
rs72725156	0.85[EUR][1000 genomes]
rs72725157	0.81[EUR][1000 genomes]
rs72725158	1.00[AFR][1000 genomes];0.90[EUR][1000 genomes]
rs72725159	0.85[EUR][1000 genomes]
rs72725160	1.00[AFR][1000 genomes];0.90[EUR][1000 genomes]
rs72725163	1.00[AFR][1000 genomes];0.90[EUR][1000 genomes]
rs72725165	0.80[EUR][1000 genomes]
rs72725168	0.81[EUR][1000 genomes]
rs72725170	0.81[EUR][1000 genomes]
rs72725173	1.00[AFR][1000 genomes];0.85[EUR][1000 genomes]
rs72725174	0.80[EUR][1000 genomes]
rs8015128	0.83[CEU][hapmap]
rs8021404	0.83[CEU][hapmap]
rs8022206	0.81[CEU][hapmap]
rs986383	0.88[AMR][1000 genomes];1.00[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	nsv518669	chr14:68354542-68362510	Enhancers Weak transcription Active TSS Strong transcription	Chromatin interactive region	4 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs1033686	GALNTL1	cis	parietal	SCAN

Chromatin state (count:8 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr14:68328000-68367800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr14:68334600-68367600	Weak transcription	Primary B cells from cord blood	blood
3	chr14:68348200-68363800	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
4	chr14:68351200-68363600	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
5	chr14:68351400-68367600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
6	chr14:68351400-68367800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
7	chr14:68351600-68367400	Weak transcription	Primary hematopoietic stem cells	blood
8	chr14:68352000-68367600	Weak transcription	Primary T cells from cord blood	blood

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