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mmu_circAtf7ip_1301
Basic information of circular RNA
PanCircBase ID:
mmu_circAtf7ip_1301
mm39_Chr. Position ID:
chr6|136540757|136570144|+
Gene name:
Atf7ip
Transcript:
ENSMUST00000032335.13
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
8
Exon/intron indexes:
3,4,5,6,7,8,9,10
Exon/intron offsets:
0,1257,2888,7713,11485,18618,23285,29316
Genomic length:
29387
Exon/intron sizes in nt:
78,146,138,66,74,89,639,71
Flanking exon/introns:
chr6:136538437-136540757|chr6:136570144-136573432
Splice length:
1301
Other database IDs:
circAtlas: mmu-Atf7ip_0034
Human Ortholog IDs:
Mature spliced Sequence:
AGGGAGAAAAGAGTGAGAAGGACGGCAAAGCTGAGGAAGAGGAGCGAGTTCCAGCCGAGGAGCAGCCACCTGTGAGAAATGAGTTTTCTAGACGAAAACGTTCTAAGTCAGAAGACATGGACAGTGTAGAGTCCAAACGCCGGCGATATATGGATGAAGAATACGAGGCTGAGTTTCAAGTAAAGATCACAGCTAAAGGTGACATCAACCAGAAGCTTCAAAAGGTCATACAGTGGTTGCTACAAGAAAAACTGTGTGCCCTACAGTGTGCTGTGTTTGATAAGACGTTGGCAGAATTAAAAACTCGAGTGGAGAAGATAGAGTGCAACAAGAGGCATAAGGCAGTGCTCACCGAGCTGCAGGCCAAGATAGCCAGGTTAACCAAACGTTTTGGAGCAGCCAAAGATGATCTTAAGAAAAGACAAGAAAGCCCTCCAAACCCACCCATATCACCAGGAAAGCCTGCCAATGACACCAACAGCAATAATAATATGACCTACAGAAATGCAGGCACAGTGCGACAACTGCTGGAGTCCAAAAGAAATGTTAGCGAGGGTCCACCACCATCCTTTCAAACTCCTGTGAATACAGTGTCTTCAGCCAGTCACGCCACTTCTACAGCAGTTGTCAGTAGTCAGCCTAAACTGCAGACCTCAGCAACCTCGGGCTCTCTGCCGGCGGCACCTCTTCTTCCTGCGCCCAGCACAGCCACCGTAGTTGCCACTACTCAGGTGCCTAGTGGGACCCCTCAGCCTACAATCTCTCTGCAGCCCTTGCCAGTGATCCTGCATGTGCCCGTTGCCGTGACCTCTCAGCCTCAGCTCCTGCAAAGTCATCCAGGGACTTTAGTGACCAATCAACCATCTGGCAACGTGGAGTTCATATCTGTGCAAAGCCAACCTACAGTGAGTGGTCTTACCAAAAATCCAGTATCCTTGCCACCCTTGCCAAACCCCACTAAACCAAACATTCCGTCAGTGCCCAGTCCTAGTAGTATTCAGAGGAACTCTTCAACCACCGCCGCACCGTTGGGAACAACCCTTGCTGTCCAGGCCGTTCCAACCGCACATTCTATTGTGCAGGCCACAAGGACTTCTCTACCCACAGTAGGCCCGTCAGGACTCTATAGCTCTTCAAGCAGTCGAGGCCCAATACAGATGAAAATCCCAATATCCACTTTTAGCCCTCCATCTTCAGCAGAACAAAATAGCTCTGCCACCCCAAGAATTGTTACAGAAAACCAGACAAACAAAACAGTAGATTCTTCTATTAATAAGAAAGCAGCCGATAGCACATCACAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AATAGCTCTGCCACCCCAAG
59.74
CTGGAACTCGCTCCTCTTCC
59.83
150
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AATAGCTCTGCCACCCCAAG
59.74
CGCTCCTCTTCCTCAGCTTT
59.75
142
PCR template sequence:
ACAAAATAGCTCTGCCACCCCAAGAATTGTTACAGAAAACCAGACAAACAAAACAGTAGATTCTTCTATTAATAAGAAAGCAGCCGATAGCACATCACAGAGGGAGAAAAGAGTGAGAAGGACGGCAAAGCTGAGGAAGAGGAGCGAGTTCCAGCCGAGGAGCAGCCACCTGTGAGAAATGAGTTTTCTAGACGAAAACG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
13
Interacting miRNAs (#binding sites)
mmu-miR-9-5p(1), mmu-miR-134-5p(1), mmu-miR-206-3p(1), mmu-miR-146a-5p(1), mmu-miR-434-5p(1), mmu-miR-433-5p(1), mmu-miR-29b-1-5p(1), mmu-miR-182-5p(1), mmu-miR-1198-5p(1), mmu-miR-5101(1), mmu-miR-335-3p(1), mmu-miR-1904(1), mmu-miR-146b-5p(1)
siRNAs for circular RNA silencing
Junction sequence
TAGCACATCACAGAGGGAGAAAAGAG
siRNA sets
TTTTCTCCCTCTGTGATGT, TTTCTCCCTCTGTGATGTG, TTCTCCCTCTGTGATGTGC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCATF7IP_1301_ORF_1
1.009
0.145283701
0.998090571
1260
ORF sequence:
ATGGACAGTGTAGAGTCCAAACGCCGGCGATATATGGATGAAGAATACGAGGCTGAGTTTCAAGTAAAGATCACAGCTAAAGGTGACATCAACCAGAAGCTTCAAAAGGTCATACAGTGGTTGCTACAAGAAAAACTGTGTGCCCTACAGTGTGCTGTGTTTGATAAGACGTTGGCAGAATTAAAAACTCGAGTGGAGAAGATAGAGTGCAACAAGAGGCATAAGGCAGTGCTCACCGAGCTGCAGGCCAAGATAGCCAGGTTAACCAAACGTTTTGGAGCAGCCAAAGATGATCTTAAGAAAAGACAAGAAAGCCCTCCAAACCCACCCATATCACCAGGAAAGCCTGCCAATGACACCAACAGCAATAATAATATGACCTACAGAAATGCAGGCACAGTGCGACAACTGCTGGAGTCCAAAAGAAATGTTAGCGAGGGTCCACCACCATCCTTTCAAACTCCTGTGAATACAGTGTCTTCAGCCAGTCACGCCACTTCTACAGCAGTTGTCAGTAGTCAGCCTAAACTGCAGACCTCAGCAACCTCGGGCTCTCTGCCGGCGGCACCTCTTCTTCCTGCGCCCAGCACAGCCACCGTAGTTGCCACTACTCAGGTGCCTAGTGGGACCCCTCAGCCTACAATCTCTCTGCAGCCCTTGCCAGTGATCCTGCATGTGCCCGTTGCCGTGACCTCTCAGCCTCAGCTCCTGCAAAGTCATCCAGGGACTTTAGTGACCAATCAACCATCTGGCAACGTGGAGTTCATATCTGTGCAAAGCCAACCTACAGTGAGTGGTCTTACCAAAAATCCAGTATCCTTGCCACCCTTGCCAAACCCCACTAAACCAAACATTCCGTCAGTGCCCAGTCCTAGTAGTATTCAGAGGAACTCTTCAACCACCGCCGCACCGTTGGGAACAACCCTTGCTGTCCAGGCCGTTCCAACCGCACATTCTATTGTGCAGGCCACAAGGACTTCTCTACCCACAGTAGGCCCGTCAGGACTCTATAGCTCTTCAAGCAGTCGAGGCCCAATACAGATGAAAATCCCAATATCCACTTTTAGCCCTCCATCTTCAGCAGAACAAAATAGCTCTGCCACCCCAAGAATTGTTACAGAAAACCAGACAAACAAAACAGTAGATTCTTCTATTAATAAGAAAGCAGCCGATAGCACATCACAGAGGGAGAAAAGAGTGAGAAGGACGGCAAAGCTGAGGAAGAGGAGCGAGTTCCAGCCGAGGAGCAGCCACCTGTGA
Peptide sequence:
MDSVESKRRRYMDEEYEAEFQVKITAKGDINQKLQKVIQWLLQEKLCALQCAVFDKTLAELKTRVEKIECNKRHKAVLTELQAKIARLTKRFGAAKDDLKKRQESPPNPPISPGKPANDTNSNNNMTYRNAGTVRQLLESKRNVSEGPPPSFQTPVNTVSSASHATSTAVVSSQPKLQTSATSGSLPAAPLLPAPSTATVVATTQVPSGTPQPTISLQPLPVILHVPVAVTSQPQLLQSHPGTLVTNQPSGNVEFISVQSQPTVSGLTKNPVSLPPLPNPTKPNIPSVPSPSSIQRNSSTTAAPLGTTLAVQAVPTAHSIVQATRTSLPTVGPSGLYSSSSSRGPIQMKIPISTFSPPSSAEQNSSATPRIVTENQTNKTVDSSINKKAADSTSQREKRVRRTAKLRKRSEFQPRSSHL
IRESfinder result
IRESfinder score
0.53581434
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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