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mmu_circIft81_717
Basic information of circular RNA
PanCircBase ID:
mmu_circIft81_717
mm39_Chr. Position ID:
chr5|122740330|122749170|-
Gene name:
Ift81
Transcript:
ENSMUST00000031426.14
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
6
Exon/intron indexes:
7,6,5,4,3,2
Exon/intron offsets:
0,417,4700,6905,7810,8675
Genomic length:
8840
Exon/intron sizes in nt:
1,11,66,90,18,11,04,160
Flanking exon/introns:
chr5:122738587-122740330|chr5:122749170-122752500
Splice length:
717
Other database IDs:
CIRCpedia: MMU_CIRCpedia_5841
circBase: hsa_circ_0097237, circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_114314
Human Ortholog IDs:
Mature spliced Sequence:
TTTTAAGCTATAACATTAATCATGAGTGACCAAATCAAATTCATCGTGGACAGCCTCAATAAGGAGCCTTTTAAGAAGAATTATAACTTAATCACATTTGATTCTTTGGGACCAATGCAACTATTGCAAGTTCTCAATGATGTCCTGGCTGAGATTGACCCCAAGCAAGATGTTGATATCAGAGAGGAGATGCCAGAGCAGACAGCCAAACGAATGTTGAATCTTCTTGGTATCCTTAAGTACAAACCTCCGGGAAATGCCACAGACATGAGCACCTTCCGTCAGGGCTTGGTGATTGGAAGTAAACCTGTGATTTACCCAGTGCTCCACTGGCTTCTTCAGCGGAGTAATGAACTAAAGAAAAGGGCATATTTAGCTCGTTTCTTAATAAAACTGGAGGTGCCAAGTGAGTTTCTTCAAGATGAGACCGTGGCTGACACCAATAAACAGTATGAAGAGCTGATGGAAGCCTTTAAAACTCTGCATAAAGAGTGTGAGCAGCTCAAAACATCTGGATTCTCTACAGCAGAAATCAGAAGGGATATCAGCGCAATGGAGGAGGAAAAAGACCAGCTCATGAAGAGAGTTGAACGGCTGAAGAAGAGGGTGGAGACCGTTCAGAACCATCAGCGAATGCTTAAAATAGCAAGACAGCTTCGAGTTGAGAAAGAGAGAGAAGAATTTCTTGCACAACAGAAACAGGAACAAAAGAATCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TCAGAACCATCAGCGAATGC
58.63
TTGAGGCTGTCCACGATGAA
59.32
159
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TCAGAACCATCAGCGAATGC
58.63
TGAGGCTGTCCACGATGAAT
59.1
158
PCR template sequence:
TCAGAACCATCAGCGAATGCTTAAAATAGCAAGACAGCTTCGAGTTGAGAAAGAGAGAGAAGAATTTCTTGCACAACAGAAACAGGAACAAAAGAATCAGTTTTAAGCTATAACATTAATCATGAGTGACCAAATCAAATTCATCGTGGACAGCCTCAATAAGGAGCCTTTTAAGAAGAATTATAACTTAATCACATTTG
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-216a-5p(1), mmu-miR-136-5p(1), mmu-miR-96-5p(1), mmu-miR-3087-3p(1)
siRNAs for circular RNA silencing
Junction sequence
ACAAAAGAATCAGTTTTAAGCTATAA
siRNA sets
ATAGCTTAAAACTGATTCT, TATAGCTTAAAACTGATTC, TTAAAACTGATTCTTTTGT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCIFT81_717_ORF_1
1.1474
0.24169669
0.948396823
702
ORF sequence:
ATGAGTGACCAAATCAAATTCATCGTGGACAGCCTCAATAAGGAGCCTTTTAAGAAGAATTATAACTTAATCACATTTGATTCTTTGGGACCAATGCAACTATTGCAAGTTCTCAATGATGTCCTGGCTGAGATTGACCCCAAGCAAGATGTTGATATCAGAGAGGAGATGCCAGAGCAGACAGCCAAACGAATGTTGAATCTTCTTGGTATCCTTAAGTACAAACCTCCGGGAAATGCCACAGACATGAGCACCTTCCGTCAGGGCTTGGTGATTGGAAGTAAACCTGTGATTTACCCAGTGCTCCACTGGCTTCTTCAGCGGAGTAATGAACTAAAGAAAAGGGCATATTTAGCTCGTTTCTTAATAAAACTGGAGGTGCCAAGTGAGTTTCTTCAAGATGAGACCGTGGCTGACACCAATAAACAGTATGAAGAGCTGATGGAAGCCTTTAAAACTCTGCATAAAGAGTGTGAGCAGCTCAAAACATCTGGATTCTCTACAGCAGAAATCAGAAGGGATATCAGCGCAATGGAGGAGGAAAAAGACCAGCTCATGAAGAGAGTTGAACGGCTGAAGAAGAGGGTGGAGACCGTTCAGAACCATCAGCGAATGCTTAAAATAGCAAGACAGCTTCGAGTTGAGAAAGAGAGAGAAGAATTTCTTGCACAACAGAAACAGGAACAAAAGAATCAGTTTTAA
Peptide sequence:
MSDQIKFIVDSLNKEPFKKNYNLITFDSLGPMQLLQVLNDVLAEIDPKQDVDIREEMPEQTAKRMLNLLGILKYKPPGNATDMSTFRQGLVIGSKPVIYPVLHWLLQRSNELKKRAYLARFLIKLEVPSEFLQDETVADTNKQYEELMEAFKTLHKECEQLKTSGFSTAEIRRDISAMEEEKDQLMKRVERLKKRVETVQNHQRMLKIARQLRVEKEREEFLAQQKQEQKNQF
IRESfinder result
IRESfinder score
0.612551222
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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