Variant report

Variant	rs2959842
Chromosome Location	chr15:76367695-76367696
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 17 )
Associated
traits (count: 6 )

rSNPs within LD-proxies of this variant (count:15)

rs_ID	r²[population]
rs2047415	0.87[YRI][hapmap]
rs2255701	0.92[GIH][hapmap]
rs2460798	0.92[GIH][hapmap]
rs2935989	0.83[YRI][hapmap]
rs2955733	0.81[ASW][hapmap];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];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2955736	0.82[YRI][hapmap]
rs2955737	0.83[YRI][hapmap]
rs334930	1.00[GIH][hapmap]
rs335681	0.92[GIH][hapmap]
rs335697	0.92[GIH][hapmap]
rs335711	0.92[GIH][hapmap]
rs4886753	1.00[GIH][hapmap]
rs985849	0.92[GIH][hapmap]
rs992437	0.87[YRI][hapmap]
rs992438	0.82[YRI][hapmap]

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	nsv569998	chr15:76232605-76550938	Enhancers Flanking Active TSS Weak transcription Strong transcription ZNF genes & repeats Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	12 gene(s)	inside rSNPs	diseases
2	nsv1048760	chr15:76334544-76496977	Enhancers Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS Weak transcription Bivalent Enhancer Flanking Active TSS Strong transcription Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases

mRNA abundance (count:6)

SNP	Gene	Cis/trans	Tissue	Source
rs2959842	TMEM202	cis	parietal	SCAN
rs2959842	NRG4	cis	parietal	SCAN
rs2959842	NRG4	cis	cerebellum	SCAN
rs2959842	C15orf60	cis	parietal	SCAN
rs2959842	C15orf27	cis	lung	GTEx
rs2959842	LRRC49	cis	cerebellum	SCAN

Chromatin state (count:12 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:76358400-76370400	Weak transcription	Psoas Muscle	Psoas
2	chr15:76361400-76370200	Weak transcription	Skeletal Muscle Female	skeletal muscle
3	chr15:76365800-76367800	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
4	chr15:76365800-76367800	Enhancers	NHEK	skin
5	chr15:76365800-76368000	Enhancers	HMEC	breast
6	chr15:76367000-76371800	Enhancers	Primary neutrophils fromperipheralblood	blood
7	chr15:76367200-76367800	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
8	chr15:76367200-76376600	Weak transcription	Right Atrium	heart
9	chr15:76367400-76367800	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
10	chr15:76367400-76369200	Enhancers	Primary monocytes fromperipheralblood	blood
11	chr15:76367600-76368000	Enhancers	Primary hematopoietic stem cells short term culture	blood
12	chr15:76367600-76368200	Enhancers	Monocytes-CD14+_RO01746	blood

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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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