Variant report

Variant	rs2935974
Chromosome Location	chr15:76398193-76398194
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 11 )
Associated
traits (count: 4 )

rSNPs within LD-proxies of this variant (count:8)

rs_ID	r²[population]
rs2047415	0.85[JPT][hapmap]
rs2201830	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.81[MKK][hapmap];1.00[TSI][hapmap];0.93[YRI][hapmap];0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2935989	0.85[JPT][hapmap]
rs2955736	0.85[JPT][hapmap]
rs2955746	0.95[JPT][hapmap];0.82[ASN][1000 genomes]
rs4886759	0.85[JPT][hapmap]
rs992437	0.95[JPT][hapmap];0.82[ASN][1000 genomes]
rs992438	0.89[GIH][hapmap];0.95[JPT][hapmap];0.83[TSI][hapmap];0.82[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 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
3	nsv833057	chr15:76367848-76585868	ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh Weak transcription Enhancers Genic enhancers Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	13 gene(s)	inside rSNPs	diseases

mRNA abundance (count:4)

SNP	Gene	Cis/trans	Tissue	Source
rs2935974	NRG4	cis	cerebellum	SCAN
rs2935974	C15orf34	cis	parietal	SCAN
rs2935974	LARP6	cis	cerebellum	SCAN
rs2935974	NRG4	cis	parietal	SCAN

Chromatin state (count:10 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:76391400-76400200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
2	chr15:76391400-76400400	Weak transcription	HUES64 Cell Line	embryonic stem cell
3	chr15:76393600-76405200	Weak transcription	Right Atrium	heart
4	chr15:76397200-76400400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
5	chr15:76397600-76398200	Enhancers	Cortex derived primary cultured neurospheres	brain
6	chr15:76397600-76398400	Enhancers	Brain Germinal Matrix	brain
7	chr15:76398000-76398400	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
8	chr15:76398000-76399200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
9	chr15:76398000-76400200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
10	chr15:76398000-76400200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain

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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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