Variant report

Variant	rs13141278
Chromosome Location	chr4:142008263-142008264
allele	C/T
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:17)

rs_ID	r²[population]
rs10007052	0.81[CHB][hapmap];0.90[CHD][hapmap];0.95[JPT][hapmap];0.88[ASN][1000 genomes]
rs10007212	0.81[CHB][hapmap];0.90[CHD][hapmap];0.95[JPT][hapmap];0.88[ASN][1000 genomes]
rs10454797	0.82[ASW][hapmap];0.88[CEU][hapmap];0.81[CHB][hapmap];0.81[GIH][hapmap];0.95[TSI][hapmap];0.90[EUR][1000 genomes]
rs11100704	0.82[ASW][hapmap];0.96[CEU][hapmap];0.93[CHB][hapmap];0.95[GIH][hapmap];1.00[LWK][hapmap];0.92[MEX][hapmap];0.97[MKK][hapmap];0.95[TSI][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes];0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs11734543	0.93[CHB][hapmap];0.82[ASN][1000 genomes]
rs11932194	0.81[CHB][hapmap]
rs13106123	0.92[CEU][hapmap];0.92[CHB][hapmap];0.94[JPT][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs13136132	0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs13434447	0.81[CHB][hapmap]
rs17006859	0.81[CHB][hapmap]
rs17426280	0.92[CEU][hapmap];0.81[CHB][hapmap];0.87[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs28529555	0.87[ASN][1000 genomes]
rs4956346	0.90[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs4956504	0.92[CEU][hapmap];0.93[CHB][hapmap];0.88[AMR][1000 genomes];0.90[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs4956509	0.88[CEU][hapmap];0.81[CHB][hapmap];0.95[TSI][hapmap];0.90[EUR][1000 genomes]
rs4956510	0.87[CHB][hapmap]
rs6537029	0.86[CHB][hapmap];0.94[JPT][hapmap];0.87[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv880167	chr4:141616979-142092124	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Bivalent/Poised TSS Genic enhancers Active TSS Flanking Bivalent TSS/Enh Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
2	nsv880169	chr4:142005573-142038481	Enhancers Weak transcription ZNF genes & repeats Strong transcription Flanking Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs13141278	IL15	cis	cerebellum	SCAN
rs13141278	RNF150	cis	cerebellum	SCAN

Chromatin state (count:11 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:141999200-142014000	Weak transcription	Fetal Muscle Trunk	muscle
2	chr4:142000800-142031600	Weak transcription	Right Ventricle	heart
3	chr4:142001000-142014200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
4	chr4:142001200-142012600	Weak transcription	Ovary	ovary
5	chr4:142003600-142015600	Weak transcription	Fetal Stomach	stomach
6	chr4:142003600-142021000	Weak transcription	Fetal Kidney	kidney
7	chr4:142003800-142009000	Weak transcription	Fetal Muscle Leg	muscle
8	chr4:142005000-142017800	Weak transcription	Colon Smooth Muscle	Colon
9	chr4:142006400-142009600	Weak transcription	Fetal Heart	heart
10	chr4:142006800-142009000	Weak transcription	Left Ventricle	heart
11	chr4:142006800-142011200	Weak transcription	Aorta	Aorta

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Input of quick search could be:

dbSNP/dbVar ID: rs12345 /nsv7879
a single nucleotide as 0-based coordinates: chr1:12345
chromosomal regions: chr1:12345-34567

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