Reference frame configuration

Reference frame style configuration
Style of reference frame	FANTOM3 interface image classical style view sequence quality DNA sequence protein sequence

cDNA summary image configuration
Contents shown in each image	Mouse DNA 98%/100bp hits Mouse DNA lower hits known ncRNA 98%/100bp hits known ncRNA lower hits Protein 85%identity/90%length hits Protein 85%identity/0%length hits Protein 70%identity/70%length hits Protein 70%identity/0%length hits Protein 50%identity/50%length hits Protein 40%identity/40%length hits Protein lower hits DNA repeat regions Poly-A signal Adjunct A-rich region Rfam motifs miRNA precursor snoRNA tRNAScan Initial baseline CDS CDS predict Estwise (Pfam) Motifs InterPro Motifs Signal Peptide TMHMM transmembrane prediction Coiled coil prediction Secondary Structure (PROF) NOnRegular Secondary Structure (NORS) Amino Acid low complexity region EST 95%/100bp hits EST 95%/100bp hits (compact) Splicing(mm5) Splicing(mm4) FANTOM3 set Sequence Quality Genomic Element DB of this transcript (mm5) CAGE systems Expression
Width of an image (> 400 pixels)	pixels

cDNA summary image configuration

Contents shown in each image

Mouse DNA 98%/100bp hits
Mouse DNA lower hits
known ncRNA 98%/100bp hits
known ncRNA lower hits
Protein 85%identity/90%length hits
Protein 85%identity/0%length hits
Protein 70%identity/70%length hits
Protein 70%identity/0%length hits
Protein 50%identity/50%length hits
Protein 40%identity/40%length hits
Protein lower hits
DNA repeat regions
Poly-A signal
Adjunct A-rich region
Rfam motifs
miRNA precursor
snoRNA
tRNAScan
Initial baseline CDS
CDS predict
Estwise (Pfam) Motifs
InterPro Motifs
Signal Peptide
TMHMM transmembrane prediction
Coiled coil prediction
Secondary Structure (PROF)
NOnRegular Secondary Structure (NORS)
Amino Acid low complexity region
EST 95%/100bp hits
EST 95%/100bp hits (compact)
Splicing(mm5)
Splicing(mm4)
FANTOM3 set
Sequence Quality
Genomic Element DB of this transcript (mm5)
CAGE systems
Expression

Width of an image (> 400 pixels)

pixels

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RIKEN (The Institute of Physical and Chemical Research) / NTT Software Corporation.