Variant report

Variant	rs903314
Chromosome Location	chr9:14750599-14750600
allele	A/C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 19 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:13)

rs_ID	r²[population]
rs10123611	1.00[CEU][hapmap];0.95[EUR][1000 genomes]
rs10511596	0.85[CEU][hapmap]
rs10756608	0.92[EUR][1000 genomes]
rs10756609	0.95[CEU][hapmap];0.95[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.98[AMR][1000 genomes];0.95[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10961689	0.85[CEU][hapmap]
rs10961690	0.81[CEU][hapmap]
rs1494343	0.81[CEU][hapmap]
rs1908301	0.94[EUR][1000 genomes]
rs2270529	0.95[CEU][hapmap];0.97[TSI][hapmap];0.91[EUR][1000 genomes]
rs2270530	0.95[CEU][hapmap];0.91[EUR][1000 genomes]
rs2382498	0.93[CEU][hapmap];0.96[EUR][1000 genomes]
rs7028604	0.90[CEU][hapmap];1.00[TSI][hapmap];0.92[EUR][1000 genomes]
rs989615	0.84[CEU][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	nsv1029491	chr9:14033607-14942373	Enhancers ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Flanking Active TSS Weak transcription Strong transcription Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	25 gene(s)	inside rSNPs	diseases
2	nsv915804	chr9:14182608-14903050	Enhancers Strong transcription Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases
3	nsv613637	chr9:14524438-15011915	Weak transcription Enhancers Flanking Active TSS Strong transcription Bivalent Enhancer Active TSS Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
4	esv3362157	chr9:14542189-14791977	ZNF genes & repeats Enhancers Weak transcription Active TSS Strong transcription Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
5	nsv1025566	chr9:14687088-14791199	ZNF genes & repeats Strong transcription Flanking Active TSS Weak transcription Active TSS Enhancers Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
6	nsv892614	chr9:14712257-14756969	Weak transcription Strong transcription Enhancers Bivalent Enhancer Active TSS Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs903314	CER1	cis	cerebellum	SCAN
rs903314	ZDHHC21	cis	cerebellum	SCAN

Chromatin state (count:40 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:14730800-14764400	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr9:14732600-14755200	Weak transcription	Fetal Intestine Large	intestine
3	chr9:14745000-14751800	Strong transcription	Fetal Kidney	kidney
4	chr9:14745000-14809800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
5	chr9:14745400-14751400	Strong transcription	Fetal Lung	lung
6	chr9:14745800-14752400	Weak transcription	Fetal Intestine Small	intestine
7	chr9:14747400-14751400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
8	chr9:14748800-14754000	Weak transcription	Adipose Nuclei	Adipose
9	chr9:14748800-14775600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
10	chr9:14748800-14775800	Weak transcription	Fetal Muscle Trunk	muscle
11	chr9:14748800-14790000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
12	chr9:14749000-14751200	Enhancers	Primary T cells from cord blood	blood
13	chr9:14749200-14751000	Enhancers	HUES48 Cell Line	embryonic stem cell
14	chr9:14749200-14751200	Enhancers	HUES64 Cell Line	embryonic stem cell
15	chr9:14749400-14750600	Enhancers	Primary T helper naive cells fromperipheralblood	blood
16	chr9:14749400-14750800	Enhancers	ES-I3 Cell Line	embryonic stem cell
17	chr9:14749400-14755000	Weak transcription	Colon Smooth Muscle	Colon
18	chr9:14749600-14750600	Enhancers	H1 Cell Line	embryonic stem cell
19	chr9:14749600-14750600	Enhancers	HUES6 Cell Line	embryonic stem cell
20	chr9:14749600-14750600	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
21	chr9:14749600-14751200	Enhancers	Fetal Heart	heart
22	chr9:14749600-14751600	Enhancers	Fetal Muscle Leg	muscle
23	chr9:14749800-14750600	Enhancers	H9 Cell Line	embryonic stem cell
24	chr9:14749800-14750600	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
25	chr9:14749800-14750600	Enhancers	Fetal Brain Male	brain
26	chr9:14749800-14750800	Strong transcription	HepG2	liver
27	chr9:14749800-14753600	Enhancers	HUVEC	blood vessel
28	chr9:14750000-14750600	Flanking Active TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
29	chr9:14750000-14750600	Flanking Active TSS	Ganglion Eminence derived primary cultured neurospheres	brain
30	chr9:14750000-14751400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
31	chr9:14750200-14750800	Enhancers	Primary T helper cells fromperipheralblood	blood
32	chr9:14750200-14750800	Enhancers	Fetal Stomach	stomach
33	chr9:14750200-14751000	Enhancers	iPS-18 Cell Line	embryonic stem cell
34	chr9:14750200-14751200	Enhancers	Brain Germinal Matrix	brain
35	chr9:14750200-14754800	Weak transcription	Aorta	Aorta
36	chr9:14750200-14755000	Weak transcription	Pancreas	Pancrea
37	chr9:14750400-14751000	Enhancers	iPS-20b Cell Line	embryonic stem cell
38	chr9:14750400-14751400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
39	chr9:14750400-14752000	Weak transcription	Duodenum Mucosa	Duodenum
40	chr9:14750400-14753200	Enhancers	Cortex derived primary cultured neurospheres	brain

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