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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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