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mmu_circIft81_686
Basic information of circular RNA
PanCircBase ID:
mmu_circIft81_686
mm39_Chr. Position ID:
chr5|122706973|122732751|-
Gene name:
Ift81
Transcript:
ENSMUST00000031426.14
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
5
Exon/intron indexes:
13,12,11,10,9
Exon/intron offsets:
0,3729,22169,24139,25614
Genomic length:
25778
Exon/intron sizes in nt:
1,29,15,01,47,96,164
Flanking exon/introns:
chr5:122705413-122706973|chr5:122732751-122738502
Splice length:
686
Other database IDs:
CIRCpedia: MMU_CIRCpedia_222355, circAtlas: mmu-Ift81_0025
Human Ortholog IDs:
Mature spliced Sequence:
GTTTAATGAAGAGGCTAGAGGAGGAGATAAAATTTAACTCATACATGGTCACTGAAAAATTTCCAAAAGAATTAGAAAGCAAGAAAAAGGAATTACATTTTTTACAGAAGGTGGTTTCTGAGCCAGCTATGGGCCACTCTGACCTTCTCGAACTTGAGACTAAAGTCAATGAAGTAAACACGGAGATCAATCAGTTGATTGAAAAGAAAATGATGAGAAACGAGCCAATTGAAGGCAAGCTCTCACTGTACAGGCAACAGGCATCCATCATTTCTCGTAAGAAAGAAGCCAAAGCTGAGGAGCTGCAGGAGACCAAGGAGAAGCTGGCCAGCCTTGAGAGAGAGGTGTTGGTGAAAACAAACCAGACCCGGGAGTTCGACGGCACTGAGGTTCTGAAGGGAGATGAGTTCAAGCGATACGTCAGTAAACTTCGAAGCAAAAGCACAGTTTTCAAAAAGAAGCATCAGATAATAGCTGAATTTAAGGCTGAGTTTGGCCTCCTGCAGAGGACAGAAGAACTTCTGAAGCAGCGTCAGGAAACCATTCAGCATCAACTGCGAACTATTGAAGAAAAGAAGGGTATATCTGGATACAGTTACACCCAAGAGGAGCTTGAGAGAGTGTCGGCCCTGAAGAGTGAGGTTGACGAGATGAAAGGCCGGACCCTGGATGACATGTCAGAGATG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GGAGCTTGAGAGAGTGTCGG
59.83
TGGAAATTTTTCAGTGACCATGT
57.13
144
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GAGCTTGAGAGAGTGTCGGC
60.46
TGGAAATTTTTCAGTGACCATGT
57.13
143
PCR template sequence:
TGGATACAGTTACACCCAAGAGGAGCTTGAGAGAGTGTCGGCCCTGAAGAGTGAGGTTGACGAGATGAAAGGCCGGACCCTGGATGACATGTCAGAGATGGTTTAATGAAGAGGCTAGAGGAGGAGATAAAATTTAACTCATACATGGTCACTGAAAAATTTCCAAAAGAATTAGAAAGCAAGAAAAAGGAATTACATTT
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-29b-2-5p(1), mmu-miR-207(1), mmu-miR-539-5p(1), mmu-miR-540-3p(1)
siRNAs for circular RNA silencing
Junction sequence
CATGTCAGAGATGGTTTAATGAAGAG
siRNA sets
CTTCATTAAACCATCTCTG, TCATTAAACCATCTCTGAC, TTCATTAAACCATCTCTGA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCIFT81_686_ORF_1
1.1855
0.347422811
0.964685604
687
ORF sequence:
ATGAAGAGGCTAGAGGAGGAGATAAAATTTAACTCATACATGGTCACTGAAAAATTTCCAAAAGAATTAGAAAGCAAGAAAAAGGAATTACATTTTTTACAGAAGGTGGTTTCTGAGCCAGCTATGGGCCACTCTGACCTTCTCGAACTTGAGACTAAAGTCAATGAAGTAAACACGGAGATCAATCAGTTGATTGAAAAGAAAATGATGAGAAACGAGCCAATTGAAGGCAAGCTCTCACTGTACAGGCAACAGGCATCCATCATTTCTCGTAAGAAAGAAGCCAAAGCTGAGGAGCTGCAGGAGACCAAGGAGAAGCTGGCCAGCCTTGAGAGAGAGGTGTTGGTGAAAACAAACCAGACCCGGGAGTTCGACGGCACTGAGGTTCTGAAGGGAGATGAGTTCAAGCGATACGTCAGTAAACTTCGAAGCAAAAGCACAGTTTTCAAAAAGAAGCATCAGATAATAGCTGAATTTAAGGCTGAGTTTGGCCTCCTGCAGAGGACAGAAGAACTTCTGAAGCAGCGTCAGGAAACCATTCAGCATCAACTGCGAACTATTGAAGAAAAGAAGGGTATATCTGGATACAGTTACACCCAAGAGGAGCTTGAGAGAGTGTCGGCCCTGAAGAGTGAGGTTGACGAGATGAAAGGCCGGACCCTGGATGACATGTCAGAGATGGTTTAA
Peptide sequence:
MKRLEEEIKFNSYMVTEKFPKELESKKKELHFLQKVVSEPAMGHSDLLELETKVNEVNTEINQLIEKKMMRNEPIEGKLSLYRQQASIISRKKEAKAEELQETKEKLASLEREVLVKTNQTREFDGTEVLKGDEFKRYVSKLRSKSTVFKKKHQIIAEFKAEFGLLQRTEELLKQRQETIQHQLRTIEEKKGISGYSYTQEELERVSALKSEVDEMKGRTLDDMSEMV
IRESfinder result
IRESfinder score
0.433005669
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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