Variant report

Variant	rs9828325
Chromosome Location	chr3:51438238-51438239
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 32 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:26)

rs_ID	r²[population]
rs13316894	1.00[MEX][hapmap];0.85[YRI][hapmap];1.00[AMR][1000 genomes]
rs13317936	1.00[AMR][1000 genomes]
rs13321111	1.00[AMR][1000 genomes]
rs13322621	1.00[AMR][1000 genomes]
rs13353505	1.00[AMR][1000 genomes]
rs17051799	1.00[MEX][hapmap]
rs28454463	1.00[AMR][1000 genomes]
rs28626048	1.00[AMR][1000 genomes]
rs28890042	1.00[AMR][1000 genomes]
rs6777506	1.00[AMR][1000 genomes]
rs6779163	1.00[MEX][hapmap];0.85[YRI][hapmap];1.00[AMR][1000 genomes]
rs6782997	1.00[MEX][hapmap];0.85[YRI][hapmap]
rs6806124	1.00[AMR][1000 genomes]
rs7627636	1.00[YRI][hapmap]
rs7635546	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9812682	1.00[AMR][1000 genomes]
rs9826415	1.00[AMR][1000 genomes]
rs9829002	1.00[AMR][1000 genomes]
rs9841963	1.00[AMR][1000 genomes]
rs9846343	1.00[AMR][1000 genomes]
rs9853900	1.00[AMR][1000 genomes]
rs9855214	1.00[MEX][hapmap];1.00[YRI][hapmap];1.00[AMR][1000 genomes]
rs9868612	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9875513	1.00[AMR][1000 genomes]
rs9878053	1.00[MEX][hapmap];1.00[YRI][hapmap];1.00[AMR][1000 genomes]
rs9880909	1.00[MEX][hapmap]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1005858	chr3:51090373-51444027	Flanking Active TSS Strong transcription Enhancers Weak transcription Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region miRNA target site	19 gene(s)	inside rSNPs	diseases
2	nsv536569	chr3:51090373-51444027	Flanking Active TSS Strong transcription Weak transcription Enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region miRNA target site	19 gene(s)	inside rSNPs	diseases
3	nsv1014464	chr3:51220151-51909780	Weak transcription Strong transcription Flanking Active TSS Genic enhancers Enhancers ZNF genes & repeats Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	53 gene(s)	inside rSNPs	diseases
4	nsv460536	chr3:51395571-51469107	Enhancers Genic enhancers Strong transcription Transcr. at gene 5' and 3' Weak transcription Bivalent Enhancer Bivalent/Poised TSS Active TSS Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region miRNA target site	19 gene(s)	inside rSNPs	diseases
5	nsv590276	chr3:51395571-51469107	Weak transcription Active TSS Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Strong transcription Enhancers ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region miRNA target site	19 gene(s)	inside rSNPs	diseases
6	nsv590277	chr3:51408051-51474418	Strong transcription Active TSS Flanking Active TSS Genic enhancers Weak transcription Transcr. at gene 5' and 3' Enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	19 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:124 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:51430200-51457000	Weak transcription	Pancreatic Islets	Pancreatic Islet
2	chr3:51430400-51440400	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
3	chr3:51430600-51441200	Strong transcription	HUES48 Cell Line	embryonic stem cell
4	chr3:51430800-51443200	Strong transcription	iPS-18 Cell Line	embryonic stem cell
5	chr3:51431000-51438400	Strong transcription	Sigmoid Colon	Sigmoid Colon
6	chr3:51431000-51439400	Strong transcription	NHEK	skin
7	chr3:51431400-51438800	Strong transcription	Thymus	Thymus
8	chr3:51431400-51442400	Strong transcription	Primary B cells from cord blood	blood
9	chr3:51431400-51471200	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
10	chr3:51431600-51446000	Strong transcription	HUES64 Cell Line	embryonic stem cell
11	chr3:51432000-51455400	Strong transcription	iPS-20b Cell Line	embryonic stem cell
12	chr3:51432200-51440600	Strong transcription	Fetal Thymus	thymus
13	chr3:51432200-51440800	Strong transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
14	chr3:51432200-51441000	Strong transcription	Rectal Smooth Muscle	rectum
15	chr3:51432200-51441400	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
16	chr3:51432200-51445000	Strong transcription	Fetal Intestine Large	intestine
17	chr3:51432200-51450000	Weak transcription	Small Intestine	intestine
18	chr3:51432400-51439400	Strong transcription	Duodenum Smooth Muscle	Duodenum
19	chr3:51432400-51440800	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
20	chr3:51432400-51441800	Strong transcription	HepG2	liver
21	chr3:51432400-51443200	Strong transcription	GM12878-XiMat	blood
22	chr3:51432400-51460000	Strong transcription	Liver	Liver
23	chr3:51432600-51441000	Strong transcription	Fetal Intestine Small	intestine
24	chr3:51432600-51444200	Strong transcription	Primary B cells from peripheral blood	blood
25	chr3:51432800-51453000	Weak transcription	Psoas Muscle	Psoas
26	chr3:51433200-51440400	Strong transcription	Placenta	Placenta
27	chr3:51433200-51441000	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
28	chr3:51433200-51441200	Strong transcription	Fetal Lung	lung
29	chr3:51433400-51477400	Weak transcription	Fetal Heart	heart
30	chr3:51433600-51441200	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
31	chr3:51433600-51442800	Strong transcription	Fetal Muscle Trunk	muscle
32	chr3:51434000-51438600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
33	chr3:51434000-51438600	Strong transcription	Primary hematopoietic stem cells short term culture	blood
34	chr3:51434000-51440600	Strong transcription	Primary T helper cells fromperipheralblood	blood
35	chr3:51434000-51441200	Strong transcription	Fetal Stomach	stomach
36	chr3:51434000-51446600	Weak transcription	Placenta Amnion	Placenta Amnion
37	chr3:51434000-51475600	Strong transcription	Primary T cells fromperipheralblood	blood
38	chr3:51434200-51439000	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
39	chr3:51434200-51441200	Strong transcription	Primary T helper 17 cells PMA-I stimulated	--
40	chr3:51434200-51441200	Strong transcription	Cortex derived primary cultured neurospheres	brain
41	chr3:51434200-51441200	Strong transcription	Foreskin Fibroblast Primary Cells skin01	Skin
42	chr3:51434200-51441200	Strong transcription	Brain Hippocampus Middle	brain
43	chr3:51434200-51443600	Strong transcription	Fetal Muscle Leg	muscle
44	chr3:51434200-51456000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
45	chr3:51434200-51460200	Strong transcription	Dnd41	blood
46	chr3:51434200-51477600	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
47	chr3:51434400-51440400	Weak transcription	NHDF-Ad	bronchial
48	chr3:51434400-51440800	Strong transcription	Fetal Brain Female	brain
49	chr3:51434400-51441000	Strong transcription	Spleen	Spleen
50	chr3:51434400-51457200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links