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mmu_circNcor2_387
Basic information of circular RNA
PanCircBase ID:
mmu_circNcor2_387
mm39_Chr. Position ID:
chr5|125163904|125175063|-
Gene name:
Ncor2
Transcript:
ENSMUST00000111402.9
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
11,10,9,8
Exon/intron offsets:
0,953,4813,11106
Genomic length:
11159
Exon/intron sizes in nt:
94,173,67,53
Flanking exon/introns:
chr5:125162123-125163904|chr5:125175063-125179706
Splice length:
387
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
CCTCTGTACAACCAGCCGTCTGACACACGCCAGTACCATGAAAACATCAAAATAAACCAGGCGATGCGGAAGAAGCTGATCTTGTACTTTAAGCGGAGGAACCACGCGCGCAAGCAGTGGGAACAGCGCTTCTGCCAGCGCTATGACCAGCTCATGGAGGCGTGGGAGAAGAAGGTAGAGCGCATAGAGAACAATCCGCGAAGGAGGGCCAAGGAGAGCAAGGTGAGGGAGTACTACGAGAAACAGTTCCCGGAGATCCGCAAGCAGCGGGAGCTGCAGGAGCGCATGCAGAGCAGGGTGGGCCAGCGTGGCAGTGGGCTCTCCATGTCGGCTGCCCGCAGTGAGCATGAGGTTTCTGAGATCATTGATGGCTTGTCTGAGCAGGAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CTCTCCATGTCGGCTGCC
60.2
TTCCGCATCGCCTGGTTTAT
60.11
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GGCTCTCCATGTCGGCTG
60.2
TCCGCATCGCCTGGTTTATT
60.11
141
PCR template sequence:
GCAGAGCAGGGTGGGCCAGCGTGGCAGTGGGCTCTCCATGTCGGCTGCCCGCAGTGAGCATGAGGTTTCTGAGATCATTGATGGCTTGTCTGAGCAGGAGCCTCTGTACAACCAGCCGTCTGACACACGCCAGTACCATGAAAACATCAAAATAAACCAGGCGATGCGGAAGAAGCTGATCTTGTACTTTAAGCGGAGGA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
4
Interacting miRNAs (#binding sites)
mmu-miR-328-3p(1), mmu-miR-29b-1-5p(1), mmu-miR-666-5p(1), mmu-miR-207(1)
siRNAs for circular RNA silencing
Junction sequence
GTCTGAGCAGGAGCCTCTGTACAACC
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCNCOR2_387_ORF_1
1.1463
0.611093732
0.989010831
711
ORF sequence:
ATGCGGAAGAAGCTGATCTTGTACTTTAAGCGGAGGAACCACGCGCGCAAGCAGTGGGAACAGCGCTTCTGCCAGCGCTATGACCAGCTCATGGAGGCGTGGGAGAAGAAGGTAGAGCGCATAGAGAACAATCCGCGAAGGAGGGCCAAGGAGAGCAAGGTGAGGGAGTACTACGAGAAACAGTTCCCGGAGATCCGCAAGCAGCGGGAGCTGCAGGAGCGCATGCAGAGCAGGGTGGGCCAGCGTGGCAGTGGGCTCTCCATGTCGGCTGCCCGCAGTGAGCATGAGGTTTCTGAGATCATTGATGGCTTGTCTGAGCAGGAGCCTCTGTACAACCAGCCGTCTGACACACGCCAGTACCATGAAAACATCAAAATAAACCAGGCGATGCGGAAGAAGCTGATCTTGTACTTTAAGCGGAGGAACCACGCGCGCAAGCAGTGGGAACAGCGCTTCTGCCAGCGCTATGACCAGCTCATGGAGGCGTGGGAGAAGAAGGTAGAGCGCATAGAGAACAATCCGCGAAGGAGGGCCAAGGAGAGCAAGGTGAGGGAGTACTACGAGAAACAGTTCCCGGAGATCCGCAAGCAGCGGGAGCTGCAGGAGCGCATGCAGAGCAGGGTGGGCCAGCGTGGCAGTGGGCTCTCCATGTCGGCTGCCCGCAGTGAGCATGAGGTTTCTGAGATCATTGATGGCTTGTCTGAGCAGGAG
Peptide sequence:
MRKKLILYFKRRNHARKQWEQRFCQRYDQLMEAWEKKVERIENNPRRRAKESKVREYYEKQFPEIRKQRELQERMQSRVGQRGSGLSMSAARSEHEVSEIIDGLSEQEPLYNQPSDTRQYHENIKINQAMRKKLILYFKRRNHARKQWEQRFCQRYDQLMEAWEKKVERIENNPRRRAKESKVREYYEKQFPEIRKQRELQERMQSRVGQRGSGLSMSAARSEHEVSEIIDGLSEQE
IRESfinder result
IRESfinder score
0.132355732
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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