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mmu_circIft81_1044
Basic information of circular RNA
PanCircBase ID:
mmu_circIft81_1044
mm39_Chr. Position ID:
chr5|122729142|122748244|-
Gene name:
Ift81
Transcript:
ENSMUST00000031426.14
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
9
Exon/intron indexes:
11,10,9,8,7,6,5,4,3
Exon/intron offsets:
0,1970,3445,9360,11188,11605,15888,18093,18998
Genomic length:
19102
Exon/intron sizes in nt:
14,79,61,64,85,11,16,60,00,00,000
Flanking exon/introns:
chr5:122710852-122729142|chr5:122748244-122749005
Splice length:
1044
Other database IDs:
circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_127866
Human Ortholog IDs:
Mature spliced Sequence:
CAAGATGTTGATATCAGAGAGGAGATGCCAGAGCAGACAGCCAAACGAATGTTGAATCTTCTTGGTATCCTTAAGTACAAACCTCCGGGAAATGCCACAGACATGAGCACCTTCCGTCAGGGCTTGGTGATTGGAAGTAAACCTGTGATTTACCCAGTGCTCCACTGGCTTCTTCAGCGGAGTAATGAACTAAAGAAAAGGGCATATTTAGCTCGTTTCTTAATAAAACTGGAGGTGCCAAGTGAGTTTCTTCAAGATGAGACCGTGGCTGACACCAATAAACAGTATGAAGAGCTGATGGAAGCCTTTAAAACTCTGCATAAAGAGTGTGAGCAGCTCAAAACATCTGGATTCTCTACAGCAGAAATCAGAAGGGATATCAGCGCAATGGAGGAGGAAAAAGACCAGCTCATGAAGAGAGTTGAACGGCTGAAGAAGAGGGTGGAGACCGTTCAGAACCATCAGCGAATGCTTAAAATAGCAAGACAGCTTCGAGTTGAGAAAGAGAGAGAAGAATTTCTTGCACAACAGAAACAGGAACAAAAGAATCAGCTGTTTCATGCGGTGCAGAGATTGCAGAGAGTGCAAAATCAGCTGAAGAGCATGCGGCACGCAGCAGCGGATGCAAAGCCTGAGAGTTTAATGAAGAGGCTAGAGGAGGAGATAAAATTTAACTCATACATGGTCACTGAAAAATTTCCAAAAGAATTAGAAAGCAAGAAAAAGGAATTACATTTTTTACAGAAGGTGGTTTCTGAGCCAGCTATGGGCCACTCTGACCTTCTCGAACTTGAGACTAAAGTCAATGAAGTAAACACGGAGATCAATCAGTTGATTGAAAAGAAAATGATGAGAAACGAGCCAATTGAAGGCAAGCTCTCACTGTACAGGCAACAGGCATCCATCATTTCTCGTAAGAAAGAAGCCAAAGCTGAGGAGCTGCAGGAGACCAAGGAGAAGCTGGCCAGCCTTGAGAGAGAGGTGTTGGTGAAAACAAACCAGACCCGGGAGTTCGACGGCACTGAGGTTCTGAAGGGAGATGAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GGAGACCAAGGAGAAGCTGG
59.75
TTCGTTTGGCTGTCTGCTCT
59.89
149
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GAGACCAAGGAGAAGCTGGC
60.39
TTCGTTTGGCTGTCTGCTCT
59.89
148
PCR template sequence:
GGAGACCAAGGAGAAGCTGGCCAGCCTTGAGAGAGAGGTGTTGGTGAAAACAAACCAGACCCGGGAGTTCGACGGCACTGAGGTTCTGAAGGGAGATGAGCAAGATGTTGATATCAGAGAGGAGATGCCAGAGCAGACAGCCAAACGAATGTTGAATCTTCTTGGTATCCTTAAGTACAAACCTCCGGGAAATGCCACAG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
6
Interacting miRNAs (#binding sites)
mmu-miR-136-5p(1), mmu-miR-96-5p(1), mmu-miR-207(1), mmu-miR-539-5p(1), mmu-miR-3087-3p(1), mmu-miR-540-3p(1)
siRNAs for circular RNA silencing
Junction sequence
GAAGGGAGATGAGCAAGATGTTGATA
siRNA sets
CAACATCTTGCTCATCTCC, TATCAACATCTTGCTCATC, AACATCTTGCTCATCTCCC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCIFT81_1044_ORF_1
1.1125
0.288755024
0.999997379
2064
ORF sequence:
ATGCCAGAGCAGACAGCCAAACGAATGTTGAATCTTCTTGGTATCCTTAAGTACAAACCTCCGGGAAATGCCACAGACATGAGCACCTTCCGTCAGGGCTTGGTGATTGGAAGTAAACCTGTGATTTACCCAGTGCTCCACTGGCTTCTTCAGCGGAGTAATGAACTAAAGAAAAGGGCATATTTAGCTCGTTTCTTAATAAAACTGGAGGTGCCAAGTGAGTTTCTTCAAGATGAGACCGTGGCTGACACCAATAAACAGTATGAAGAGCTGATGGAAGCCTTTAAAACTCTGCATAAAGAGTGTGAGCAGCTCAAAACATCTGGATTCTCTACAGCAGAAATCAGAAGGGATATCAGCGCAATGGAGGAGGAAAAAGACCAGCTCATGAAGAGAGTTGAACGGCTGAAGAAGAGGGTGGAGACCGTTCAGAACCATCAGCGAATGCTTAAAATAGCAAGACAGCTTCGAGTTGAGAAAGAGAGAGAAGAATTTCTTGCACAACAGAAACAGGAACAAAAGAATCAGCTGTTTCATGCGGTGCAGAGATTGCAGAGAGTGCAAAATCAGCTGAAGAGCATGCGGCACGCAGCAGCGGATGCAAAGCCTGAGAGTTTAATGAAGAGGCTAGAGGAGGAGATAAAATTTAACTCATACATGGTCACTGAAAAATTTCCAAAAGAATTAGAAAGCAAGAAAAAGGAATTACATTTTTTACAGAAGGTGGTTTCTGAGCCAGCTATGGGCCACTCTGACCTTCTCGAACTTGAGACTAAAGTCAATGAAGTAAACACGGAGATCAATCAGTTGATTGAAAAGAAAATGATGAGAAACGAGCCAATTGAAGGCAAGCTCTCACTGTACAGGCAACAGGCATCCATCATTTCTCGTAAGAAAGAAGCCAAAGCTGAGGAGCTGCAGGAGACCAAGGAGAAGCTGGCCAGCCTTGAGAGAGAGGTGTTGGTGAAAACAAACCAGACCCGGGAGTTCGACGGCACTGAGGTTCTGAAGGGAGATGAGCAAGATGTTGATATCAGAGAGGAGATGCCAGAGCAGACAGCCAAACGAATGTTGAATCTTCTTGGTATCCTTAAGTACAAACCTCCGGGAAATGCCACAGACATGAGCACCTTCCGTCAGGGCTTGGTGATTGGAAGTAAACCTGTGATTTACCCAGTGCTCCACTGGCTTCTTCAGCGGAGTAATGAACTAAAGAAAAGGGCATATTTAGCTCGTTTCTTAATAAAACTGGAGGTGCCAAGTGAGTTTCTTCAAGATGAGACCGTGGCTGACACCAATAAACAGTATGAAGAGCTGATGGAAGCCTTTAAAACTCTGCATAAAGAGTGTGAGCAGCTCAAAACATCTGGATTCTCTACAGCAGAAATCAGAAGGGATATCAGCGCAATGGAGGAGGAAAAAGACCAGCTCATGAAGAGAGTTGAACGGCTGAAGAAGAGGGTGGAGACCGTTCAGAACCATCAGCGAATGCTTAAAATAGCAAGACAGCTTCGAGTTGAGAAAGAGAGAGAAGAATTTCTTGCACAACAGAAACAGGAACAAAAGAATCAGCTGTTTCATGCGGTGCAGAGATTGCAGAGAGTGCAAAATCAGCTGAAGAGCATGCGGCACGCAGCAGCGGATGCAAAGCCTGAGAGTTTAATGAAGAGGCTAGAGGAGGAGATAAAATTTAACTCATACATGGTCACTGAAAAATTTCCAAAAGAATTAGAAAGCAAGAAAAAGGAATTACATTTTTTACAGAAGGTGGTTTCTGAGCCAGCTATGGGCCACTCTGACCTTCTCGAACTTGAGACTAAAGTCAATGAAGTAAACACGGAGATCAATCAGTTGATTGAAAAGAAAATGATGAGAAACGAGCCAATTGAAGGCAAGCTCTCACTGTACAGGCAACAGGCATCCATCATTTCTCGTAAGAAAGAAGCCAAAGCTGAGGAGCTGCAGGAGACCAAGGAGAAGCTGGCCAGCCTTGAGAGAGAGGTGTTGGTGAAAACAAACCAGACCCGGGAGTTCGACGGCACTGAGGTTCTGAAGGGAGATGAG
Peptide sequence:
MPEQTAKRMLNLLGILKYKPPGNATDMSTFRQGLVIGSKPVIYPVLHWLLQRSNELKKRAYLARFLIKLEVPSEFLQDETVADTNKQYEELMEAFKTLHKECEQLKTSGFSTAEIRRDISAMEEEKDQLMKRVERLKKRVETVQNHQRMLKIARQLRVEKEREEFLAQQKQEQKNQLFHAVQRLQRVQNQLKSMRHAAADAKPESLMKRLEEEIKFNSYMVTEKFPKELESKKKELHFLQKVVSEPAMGHSDLLELETKVNEVNTEINQLIEKKMMRNEPIEGKLSLYRQQASIISRKKEAKAEELQETKEKLASLEREVLVKTNQTREFDGTEVLKGDEQDVDIREEMPEQTAKRMLNLLGILKYKPPGNATDMSTFRQGLVIGSKPVIYPVLHWLLQRSNELKKRAYLARFLIKLEVPSEFLQDETVADTNKQYEELMEAFKTLHKECEQLKTSGFSTAEIRRDISAMEEEKDQLMKRVERLKKRVETVQNHQRMLKIARQLRVEKEREEFLAQQKQEQKNQLFHAVQRLQRVQNQLKSMRHAAADAKPESLMKRLEEEIKFNSYMVTEKFPKELESKKKELHFLQKVVSEPAMGHSDLLELETKVNEVNTEINQLIEKKMMRNEPIEGKLSLYRQQASIISRKKEAKAEELQETKEKLASLEREVLVKTNQTREFDGTEVLKGDE
IRESfinder result
IRESfinder score
0.463319943
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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