Variant report

Variant	rs10090764
Chromosome Location	chr8:103079505-103079506
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 35 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:24)

rs_ID	r²[population]
rs10086088	0.99[AFR][1000 genomes];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10110783	0.85[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[MEX][hapmap];0.86[TSI][hapmap];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10111484	0.89[MEX][hapmap];0.83[TSI][hapmap]
rs10955279	0.91[CEU][hapmap];1.00[CHB][hapmap];0.85[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11775854	1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.82[YRI][hapmap];0.97[EUR][1000 genomes]
rs11784583	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.91[GIH][hapmap];0.97[LWK][hapmap];1.00[MEX][hapmap];0.97[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11784616	1.00[ASW][hapmap];1.00[CHB][hapmap];0.97[LWK][hapmap];0.97[MKK][hapmap];0.86[TSI][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];0.95[ASN][1000 genomes]
rs11785772	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[ASN][1000 genomes]
rs16869009	1.00[CEU][hapmap];0.85[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17415172	0.88[ASN][1000 genomes]
rs28495349	0.98[AFR][1000 genomes];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56162098	0.99[EUR][1000 genomes]
rs56224216	0.90[AFR][1000 genomes]
rs56844350	0.83[AFR][1000 genomes]
rs62523038	0.99[AFR][1000 genomes];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62523039	0.93[AFR][1000 genomes];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6992873	0.82[ASW][hapmap];1.00[LWK][hapmap];0.95[YRI][hapmap];0.90[AFR][1000 genomes]
rs6993476	0.92[AFR][1000 genomes];0.88[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs7012174	0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[MEX][hapmap];0.97[TSI][hapmap];0.85[AMR][1000 genomes];0.93[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7826367	0.81[LWK][hapmap];0.81[YRI][hapmap]
rs7831372	0.84[ASN][1000 genomes]
rs7832614	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[YRI][hapmap]
rs7834622	1.00[CHB][hapmap]
rs7837308	1.00[CHB][hapmap];0.95[YRI][hapmap];0.90[AFR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:11 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv831411	chr8:102937991-103108140	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
2	nsv891232	chr8:103001914-103138045	Enhancers Bivalent/Poised TSS Flanking Active TSS Weak transcription Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA	8 gene(s)	inside rSNPs	diseases
3	nsv891233	chr8:103001914-103162638	Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA	9 gene(s)	inside rSNPs	diseases
4	nsv891234	chr8:103020391-103113701	Flanking Active TSS Enhancers Weak transcription Genic enhancers ZNF genes & repeats Active TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
5	nsv891235	chr8:103032394-103162638	Enhancers Flanking Active TSS Weak transcription Bivalent/Poised TSS Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA miRNA	5 gene(s)	inside rSNPs	diseases
6	nsv891237	chr8:103039917-103113701	Weak transcription Enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Genic enhancers Active TSS	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
7	nsv891238	chr8:103055520-103116959	Enhancers Weak transcription Genic enhancers ZNF genes & repeats Flanking Active TSS Active TSS Strong transcription	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
8	nsv891239	chr8:103056517-103162638	Enhancers Flanking Bivalent TSS/Enh Weak transcription Flanking Active TSS Active TSS Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA miRNA	5 gene(s)	inside rSNPs	diseases
9	nsv891240	chr8:103070301-103162638	Weak transcription Enhancers Flanking Active TSS Active TSS Strong transcription Bivalent Enhancer Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	5 gene(s)	inside rSNPs	diseases
10	esv2754264	chr8:103070824-103170824	Enhancers Weak transcription Flanking Active TSS Genic enhancers Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA miRNA	5 gene(s)	inside rSNPs	diseases
11	nsv891241	chr8:103079505-103162638	Enhancers Flanking Active TSS Weak transcription Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA miRNA	5 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs10090764	ODF1	cis	cerebellum	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr8:103065400-103085800	Weak transcription	Primary T cells from cord blood	blood
2	chr8:103073400-103079800	Weak transcription	H1 Cell Line	embryonic stem cell
3	chr8:103073400-103079800	Weak transcription	Duodenum Smooth Muscle	Duodenum
4	chr8:103075800-103080600	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
5	chr8:103076200-103080600	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
6	chr8:103076600-103080600	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
7	chr8:103076600-103082000	Weak transcription	Fetal Stomach	stomach
8	chr8:103076600-103088800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
9	chr8:103076600-103089200	Weak transcription	NHDF-Ad	bronchial
10	chr8:103076800-103079800	Weak transcription	Colon Smooth Muscle	Colon
11	chr8:103076800-103080000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
12	chr8:103076800-103082200	Weak transcription	Fetal Muscle Trunk	muscle
13	chr8:103076800-103082800	Weak transcription	Skeletal Muscle Male	skeletal muscle
14	chr8:103076800-103083200	Weak transcription	Right Ventricle	heart
15	chr8:103077000-103079600	Weak transcription	Skeletal Muscle Female	skeletal muscle
16	chr8:103077000-103080400	Weak transcription	Primary T cells fromperipheralblood	blood
17	chr8:103077000-103090400	Weak transcription	Aorta	Aorta
18	chr8:103077400-103080800	Enhancers	HUES64 Cell Line	embryonic stem cell
19	chr8:103077800-103079800	Weak transcription	Fetal Muscle Leg	muscle
20	chr8:103078000-103082600	Weak transcription	Fetal Brain Male	brain
21	chr8:103078200-103080600	Enhancers	ES-I3 Cell Line	embryonic stem cell
22	chr8:103078200-103080600	Enhancers	HUES48 Cell Line	embryonic stem cell
23	chr8:103078200-103080600	Enhancers	iPS-18 Cell Line	embryonic stem cell
24	chr8:103078200-103080800	Enhancers	HUES6 Cell Line	embryonic stem cell
25	chr8:103078200-103081000	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
26	chr8:103078400-103079600	Enhancers	iPS-20b Cell Line	embryonic stem cell
27	chr8:103078400-103080200	Enhancers	iPS-15b Cell Line	embryonic stem cell
28	chr8:103078600-103080600	Enhancers	Left Ventricle	heart
29	chr8:103078600-103081200	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
30	chr8:103078800-103080600	Enhancers	GM12878-XiMat	blood
31	chr8:103079000-103080400	Weak transcription	Lung	lung
32	chr8:103079000-103080400	Enhancers	Stomach Smooth Muscle	stomach
33	chr8:103079000-103080800	Enhancers	Ovary	ovary
34	chr8:103079200-103079600	Weak transcription	Psoas Muscle	Psoas
35	chr8:103079200-103080000	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
36	chr8:103079200-103080800	Enhancers	Fetal Heart	heart
37	chr8:103079400-103079800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
38	chr8:103079400-103080000	Weak transcription	H9 Cell Line	embryonic stem cell
39	chr8:103079400-103080400	Enhancers	Fetal Adrenal Gland	Adrenal Gland
40	chr8:103079400-103080600	Enhancers	K562	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links