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mmu_circRabl6_351
Basic information of circular RNA
PanCircBase ID:
mmu_circRabl6_351
mm39_Chr. Position ID:
chr2|25478620|25482919|-
Gene name:
Rabl6
Transcript:
ENSMUST00000058137.9
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
8,7,6
Exon/intron offsets:
0,3689,4158
Genomic length:
4299
Exon/intron sizes in nt:
10,41,06,141
Flanking exon/introns:
chr2:25477639-25478620|chr2:25482919-25486444
Splice length:
351
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GACCTTCAATTATGTTCTCCGGGAGCTTCCCAAAGTGCCAACCCATGTGCCGGTGTGTGTGCTGGGCAACTACCGTGACATGGGCGAGCATCGAGTCATTCTACCAGACGATGTGCGGGACTTCATTGAGCATCTGGACAGACCTCCAGGTTCCTCCTATTTCCGCTATGCTGAATCTTCCATGAAGAACAGCTTTGGTCTAAAGTACCTGCATAAGTTCTTCAACATCCCATTTTTGCAACTACAGAGGGAGACACTACTGAGGCAGCTGGAGACAAACCAACTAGACATCGATGCCACACTAGAGGAGCTATCAGTGCAGCAGGAAACCGAGGACCAGAACTACAGCAT
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CTGAGGCAGCTGGAGACAAA
59.96
CACATGGGTTGGCACTTTGG
59.97
141
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CTGAGGCAGCTGGAGACAAA
59.96
ATGTCACGGTAGTTGCCCAG
60.04
173
PCR template sequence:
AGACACTACTGAGGCAGCTGGAGACAAACCAACTAGACATCGATGCCACACTAGAGGAGCTATCAGTGCAGCAGGAAACCGAGGACCAGAACTACAGCATGACCTTCAATTATGTTCTCCGGGAGCTTCCCAAAGTGCCAACCCATGTGCCGGTGTGTGTGCTGGGCAACTACCGTGACATGGGCGAGCATCGAGTCATT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
3
Interacting miRNAs (#binding sites)
mmu-miR-382-5p(1), mmu-miR-370-3p(1), mmu-miR-490-3p(1)
siRNAs for circular RNA silencing
Junction sequence
AGAACTACAGCATGACCTTCAATTAT
siRNA sets
ATAATTGAAGGTCATGCTG, TAATTGAAGGTCATGCTGT, TTGAAGGTCATGCTGTAGT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCRABL6_351_ORF_1
1.2689
0.402568262
0.961854395
621
ORF sequence:
ATGGGCGAGCATCGAGTCATTCTACCAGACGATGTGCGGGACTTCATTGAGCATCTGGACAGACCTCCAGGTTCCTCCTATTTCCGCTATGCTGAATCTTCCATGAAGAACAGCTTTGGTCTAAAGTACCTGCATAAGTTCTTCAACATCCCATTTTTGCAACTACAGAGGGAGACACTACTGAGGCAGCTGGAGACAAACCAACTAGACATCGATGCCACACTAGAGGAGCTATCAGTGCAGCAGGAAACCGAGGACCAGAACTACAGCATGACCTTCAATTATGTTCTCCGGGAGCTTCCCAAAGTGCCAACCCATGTGCCGGTGTGTGTGCTGGGCAACTACCGTGACATGGGCGAGCATCGAGTCATTCTACCAGACGATGTGCGGGACTTCATTGAGCATCTGGACAGACCTCCAGGTTCCTCCTATTTCCGCTATGCTGAATCTTCCATGAAGAACAGCTTTGGTCTAAAGTACCTGCATAAGTTCTTCAACATCCCATTTTTGCAACTACAGAGGGAGACACTACTGAGGCAGCTGGAGACAAACCAACTAGACATCGATGCCACACTAGAGGAGCTATCAGTGCAGCAGGAAACCGAGGACCAGAACTACAGC
Peptide sequence:
MGEHRVILPDDVRDFIEHLDRPPGSSYFRYAESSMKNSFGLKYLHKFFNIPFLQLQRETLLRQLETNQLDIDATLEELSVQQETEDQNYSMTFNYVLRELPKVPTHVPVCVLGNYRDMGEHRVILPDDVRDFIEHLDRPPGSSYFRYAESSMKNSFGLKYLHKFFNIPFLQLQRETLLRQLETNQLDIDATLEELSVQQETEDQNYS
IRESfinder result
IRESfinder score
0.567869826
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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