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mmu_circIft81_612
Basic information of circular RNA
PanCircBase ID:
mmu_circIft81_612
mm39_Chr. Position ID:
chr5|122705323|122731208|-
Gene name:
Ift81
Transcript:
ENSMUST00000031426.14
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
5
Exon/intron indexes:
14,13,12,11,10
Exon/intron offsets:
0,1650,5379,23819,25789
Genomic length:
25885
Exon/intron sizes in nt:
90,129,150,147,96
Flanking exon/introns:
chr5:122698808-122705323|chr5:122731208-122732587
Splice length:
612
Other database IDs:
circAtlas: hsa-SCAF8_0001
Human Ortholog IDs:
Mature spliced Sequence:
GTCAATGAAGTAAACACGGAGATCAATCAGTTGATTGAAAAGAAAATGATGAGAAACGAGCCAATTGAAGGCAAGCTCTCACTGTACAGGCAACAGGCATCCATCATTTCTCGTAAGAAAGAAGCCAAAGCTGAGGAGCTGCAGGAGACCAAGGAGAAGCTGGCCAGCCTTGAGAGAGAGGTGTTGGTGAAAACAAACCAGACCCGGGAGTTCGACGGCACTGAGGTTCTGAAGGGAGATGAGTTCAAGCGATACGTCAGTAAACTTCGAAGCAAAAGCACAGTTTTCAAAAAGAAGCATCAGATAATAGCTGAATTTAAGGCTGAGTTTGGCCTCCTGCAGAGGACAGAAGAACTTCTGAAGCAGCGTCAGGAAACCATTCAGCATCAACTGCGAACTATTGAAGAAAAGAAGGGTATATCTGGATACAGTTACACCCAAGAGGAGCTTGAGAGAGTGTCGGCCCTGAAGAGTGAGGTTGACGAGATGAAAGGCCGGACCCTGGATGACATGTCAGAGATGGTGAAAAAACTGAATTCCTTGGTATCAGAAAAGAAGTCAGCTTTAGCCCCAGTTATAAAAGAACTACGGCAGTTGCGTCAGAAATGTCAA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GAAGTCAGCTTTAGCCCCAGT
60
GCCTGTTGCCTGTACAGTGA
60.25
156
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AGTCAGCTTTAGCCCCAGTT
58.93
GCCTGTTGCCTGTACAGTGA
60.25
154
PCR template sequence:
GTCAGAGATGGTGAAAAAACTGAATTCCTTGGTATCAGAAAAGAAGTCAGCTTTAGCCCCAGTTATAAAAGAACTACGGCAGTTGCGTCAGAAATGTCAAGTCAATGAAGTAAACACGGAGATCAATCAGTTGATTGAAAAGAAAATGATGAGAAACGAGCCAATTGAAGGCAAGCTCTCACTGTACAGGCAACAGGCAT
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-29b-2-5p(1), mmu-miR-207(1), mmu-miR-539-5p(1)
siRNAs for circular RNA silencing
Junction sequence
TCAGAAATGTCAAGTCAATGAAGTAA
siRNA sets
TTACTTCATTGACTTGACA, ATTGACTTGACATTTCTGA, TTCATTGACTTGACATTTC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCIFT81_612_ORF_1
1.2035
0.392072918
0.999156774
1179
ORF sequence:
ATGATGAGAAACGAGCCAATTGAAGGCAAGCTCTCACTGTACAGGCAACAGGCATCCATCATTTCTCGTAAGAAAGAAGCCAAAGCTGAGGAGCTGCAGGAGACCAAGGAGAAGCTGGCCAGCCTTGAGAGAGAGGTGTTGGTGAAAACAAACCAGACCCGGGAGTTCGACGGCACTGAGGTTCTGAAGGGAGATGAGTTCAAGCGATACGTCAGTAAACTTCGAAGCAAAAGCACAGTTTTCAAAAAGAAGCATCAGATAATAGCTGAATTTAAGGCTGAGTTTGGCCTCCTGCAGAGGACAGAAGAACTTCTGAAGCAGCGTCAGGAAACCATTCAGCATCAACTGCGAACTATTGAAGAAAAGAAGGGTATATCTGGATACAGTTACACCCAAGAGGAGCTTGAGAGAGTGTCGGCCCTGAAGAGTGAGGTTGACGAGATGAAAGGCCGGACCCTGGATGACATGTCAGAGATGGTGAAAAAACTGAATTCCTTGGTATCAGAAAAGAAGTCAGCTTTAGCCCCAGTTATAAAAGAACTACGGCAGTTGCGTCAGAAATGTCAAGTCAATGAAGTAAACACGGAGATCAATCAGTTGATTGAAAAGAAAATGATGAGAAACGAGCCAATTGAAGGCAAGCTCTCACTGTACAGGCAACAGGCATCCATCATTTCTCGTAAGAAAGAAGCCAAAGCTGAGGAGCTGCAGGAGACCAAGGAGAAGCTGGCCAGCCTTGAGAGAGAGGTGTTGGTGAAAACAAACCAGACCCGGGAGTTCGACGGCACTGAGGTTCTGAAGGGAGATGAGTTCAAGCGATACGTCAGTAAACTTCGAAGCAAAAGCACAGTTTTCAAAAAGAAGCATCAGATAATAGCTGAATTTAAGGCTGAGTTTGGCCTCCTGCAGAGGACAGAAGAACTTCTGAAGCAGCGTCAGGAAACCATTCAGCATCAACTGCGAACTATTGAAGAAAAGAAGGGTATATCTGGATACAGTTACACCCAAGAGGAGCTTGAGAGAGTGTCGGCCCTGAAGAGTGAGGTTGACGAGATGAAAGGCCGGACCCTGGATGACATGTCAGAGATGGTGAAAAAACTGAATTCCTTGGTATCAGAAAAGAAGTCAGCTTTAGCCCCAGTTATAAAAGAACTACGGCAGTTGCGTCAGAAATGTCAA
Peptide sequence:
MMRNEPIEGKLSLYRQQASIISRKKEAKAEELQETKEKLASLEREVLVKTNQTREFDGTEVLKGDEFKRYVSKLRSKSTVFKKKHQIIAEFKAEFGLLQRTEELLKQRQETIQHQLRTIEEKKGISGYSYTQEELERVSALKSEVDEMKGRTLDDMSEMVKKLNSLVSEKKSALAPVIKELRQLRQKCQVNEVNTEINQLIEKKMMRNEPIEGKLSLYRQQASIISRKKEAKAEELQETKEKLASLEREVLVKTNQTREFDGTEVLKGDEFKRYVSKLRSKSTVFKKKHQIIAEFKAEFGLLQRTEELLKQRQETIQHQLRTIEEKKGISGYSYTQEELERVSALKSEVDEMKGRTLDDMSEMVKKLNSLVSEKKSALAPVIKELRQLRQKCQ
IRESfinder result
IRESfinder score
0.33925909
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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