Variant report

Variant	rs751554
Chromosome Location	chr3:105137843-105137844
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 58 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:54)

rs_ID	r²[population]
rs1044243	1.00[CHB][hapmap];0.82[AMR][1000 genomes]
rs13315085	0.82[AMR][1000 genomes]
rs13315918	1.00[CHB][hapmap];0.82[AMR][1000 genomes]
rs13317140	0.82[AMR][1000 genomes]
rs13317379	0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13320956	1.00[CHB][hapmap];0.82[AMR][1000 genomes]
rs13325976	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap]
rs17181561	0.84[CEU][hapmap];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17181701	0.84[CEU][hapmap];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17189101	1.00[CHB][hapmap];0.82[AMR][1000 genomes]
rs17189643	1.00[CHB][hapmap];0.82[AMR][1000 genomes]
rs17189711	1.00[CHB][hapmap];0.82[AMR][1000 genomes]
rs2291374	1.00[CHB][hapmap];0.82[AMR][1000 genomes]
rs28452673	0.95[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3772552	0.82[AMR][1000 genomes]
rs3772556	0.88[CHD][hapmap]
rs72989914	0.82[AMR][1000 genomes]
rs72989943	0.82[AMR][1000 genomes]
rs73006164	0.86[AMR][1000 genomes]
rs7610031	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.82[AMR][1000 genomes]
rs7619149	0.82[AMR][1000 genomes]
rs7633779	1.00[CHB][hapmap];0.82[AMR][1000 genomes]
rs7645474	0.82[CHB][hapmap];0.82[AMR][1000 genomes]
rs9288807	0.84[CEU][hapmap];0.95[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9822014	0.85[YRI][hapmap];0.83[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9825097	0.86[AMR][1000 genomes];0.82[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9826369	0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9828587	1.00[CHB][hapmap];0.82[AMR][1000 genomes]
rs9829190	1.00[CHB][hapmap];0.82[AMR][1000 genomes]
rs9830049	0.82[AMR][1000 genomes]
rs9831077	0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9832489	0.95[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs9839346	1.00[CHB][hapmap];0.82[AMR][1000 genomes]
rs9840990	0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9841699	1.00[CHB][hapmap];0.82[AMR][1000 genomes]
rs9842772	1.00[CHB][hapmap];0.87[CHD][hapmap];1.00[GIH][hapmap]
rs9843750	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap]
rs9847971	0.82[AMR][1000 genomes]
rs9851399	0.95[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs9854028	0.80[CEU][hapmap];0.83[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9855810	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.82[AMR][1000 genomes]
rs9859198	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9859785	0.84[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.82[AMR][1000 genomes]
rs9862725	1.00[CHB][hapmap];0.82[AMR][1000 genomes]
rs9866561	0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9870312	0.82[AMR][1000 genomes]
rs9873424	0.82[AMR][1000 genomes]
rs9876895	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.82[AMR][1000 genomes]
rs9876906	1.00[ASW][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];0.85[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9877002	0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9877483	1.00[AFR][1000 genomes];0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9878315	1.00[CHB][hapmap];0.82[AMR][1000 genomes]
rs9882494	0.84[CEU][hapmap];0.85[YRI][hapmap];1.00[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9990253	1.00[CHB][hapmap];0.82[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv525071	chr3:105004853-105409321	Enhancers Strong transcription Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	6 gene(s)	inside rSNPs	diseases
2	nsv829650	chr3:105070893-105255036	Enhancers Active TSS Weak transcription Flanking Active TSS Bivalent/Poised TSS Genic enhancers Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
3	nsv877304	chr3:105122214-105198374	Enhancers Weak transcription Active TSS ZNF genes & repeats Genic enhancers Flanking Active TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	n/a
4	nsv965389	chr3:105136702-105141255	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS	Chromatin interactive region	n/a	inside rSNPs	n/a

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs751554	DZIP3	cis	cerebellum	SCAN

Chromatin state (count:17 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:105134400-105141400	Weak transcription	Brain Cingulate Gyrus	brain
2	chr3:105134400-105145400	Weak transcription	Brain Angular Gyrus	brain
3	chr3:105135000-105141400	Weak transcription	Brain Anterior Caudate	brain
4	chr3:105135000-105145800	Weak transcription	Brain Substantia Nigra	brain
5	chr3:105135200-105152000	Weak transcription	NH-A	brain
6	chr3:105135600-105139400	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
7	chr3:105137200-105141000	Weak transcription	Osteobl	bone
8	chr3:105137200-105145400	Weak transcription	Brain Hippocampus Middle	brain
9	chr3:105137200-105147400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
10	chr3:105137200-105149400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
11	chr3:105137400-105138200	Weak transcription	Primary hematopoietic stem cells	blood
12	chr3:105137400-105141400	Weak transcription	Muscle Satellite Cultured Cells	--
13	chr3:105137400-105143400	Weak transcription	A549	lung
14	chr3:105137400-105149200	Weak transcription	Primary hematopoietic stem cells short term culture	blood
15	chr3:105137400-105178600	Weak transcription	Primary B cells from cord blood	blood
16	chr3:105137600-105139400	Enhancers	Pancreatic Islets	Pancreatic Islet
17	chr3:105137600-105143400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links