Variant report

Variant	rs7562436
Chromosome Location	chr2:151496161-151496162
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 83 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:77)

rs_ID	r²[population]
rs10188741	0.98[ASN][1000 genomes]
rs10432416	0.98[ASN][1000 genomes]
rs10497064	0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10497067	0.98[ASN][1000 genomes]
rs10497068	0.98[ASN][1000 genomes]
rs10497069	1.00[EUR][1000 genomes]
rs10803803	0.82[ASN][1000 genomes]
rs10930198	0.90[ASN][1000 genomes]
rs10930203	0.81[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs11894862	0.98[ASN][1000 genomes]
rs11899711	0.98[ASN][1000 genomes]
rs12052383	0.90[CHB][hapmap]
rs12473120	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12614085	0.98[ASN][1000 genomes]
rs13019271	0.98[ASN][1000 genomes]
rs16828368	0.81[CEU][hapmap];0.90[CHB][hapmap]
rs16828372	0.90[CHB][hapmap]
rs2247416	0.86[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2290815	0.86[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2290816	0.86[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2290817	0.83[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs2341059	1.00[CEU][hapmap];0.90[CHB][hapmap];1.00[GIH][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.86[AMR][1000 genomes];0.97[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2341060	1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2341061	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2341062	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.93[TSI][hapmap];0.86[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2341063	0.86[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2341064	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2341065	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2341066	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2341067	0.86[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2341068	0.85[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2341071	0.86[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2341072	0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2341073	0.86[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2341074	0.86[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2341075	0.87[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2341078	0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2341081	0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2341082	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2341083	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2341084	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2341085	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2341086	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2341087	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2341088	0.98[ASN][1000 genomes]
rs2341089	0.98[ASN][1000 genomes]
rs2341090	0.98[ASN][1000 genomes]
rs2341091	0.98[ASN][1000 genomes]
rs2879931	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4233665	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4233666	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4233667	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4297879	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.85[GIH][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap];0.86[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4334493	1.00[CEU][hapmap];0.90[CHB][hapmap];0.97[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs4365460	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4380232	0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4408725	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4514872	0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4530365	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4530366	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4600650	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4627564	0.97[EUR][1000 genomes]
rs4664150	0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4664689	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4664692	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6710003	0.98[ASN][1000 genomes]
rs6724645	0.93[EUR][1000 genomes]
rs71338158	0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7557930	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7559963	0.91[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7560326	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7569499	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7593427	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7597424	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7602198	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9287861	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9287862	0.98[ASN][1000 genomes]

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	nsv1001838	chr2:150819672-151745876	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Active TSS Genic enhancers Strong transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	51 gene(s)	inside rSNPs	diseases
2	nsv535980	chr2:150819672-151745876	Enhancers Weak transcription Active TSS Strong transcription Transcr. at gene 5' and 3' Genic enhancers Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	51 gene(s)	inside rSNPs	diseases
3	nsv532473	chr2:151164210-151701860	Flanking Active TSS Enhancers Genic enhancers Strong transcription Weak transcription Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	47 gene(s)	inside rSNPs	diseases
4	nsv834415	chr2:151374254-151558649	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Active TSS Bivalent Enhancer Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	25 gene(s)	inside rSNPs	diseases
5	esv2757836	chr2:151457277-151844210	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Genic enhancers Bivalent Enhancer Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	21 gene(s)	inside rSNPs	diseases
6	esv2759096	chr2:151457277-151844210	Weak transcription Enhancers Active TSS ZNF genes & repeats Flanking Active TSS Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	21 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs7562436	ARL5A	cis	cerebellum	SCAN

Chromatin state (count:20 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:151494400-151496600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
2	chr2:151494600-151497200	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
3	chr2:151494600-151504600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
4	chr2:151495400-151496800	Enhancers	Cortex derived primary cultured neurospheres	brain
5	chr2:151495400-151496800	Enhancers	Fetal Stomach	stomach
6	chr2:151495600-151496400	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
7	chr2:151495600-151496600	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
8	chr2:151495600-151497000	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
9	chr2:151495600-151497000	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
10	chr2:151495600-151497200	Enhancers	HSMM	muscle
11	chr2:151495800-151496800	Flanking Active TSS	Osteobl	bone
12	chr2:151495800-151497000	Flanking Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
13	chr2:151495800-151497000	Flanking Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
14	chr2:151495800-151497000	Flanking Active TSS	Muscle Satellite Cultured Cells	--
15	chr2:151496000-151496200	Enhancers	NHLF	lung
16	chr2:151496000-151496800	Active TSS	A549	lung
17	chr2:151496000-151497000	Flanking Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
18	chr2:151496000-151497000	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
19	chr2:151496000-151497000	Active TSS	Stomach Smooth Muscle	stomach
20	chr2:151496000-151497000	Flanking Active TSS	NHDF-Ad	bronchial

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