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mmu_ciNbea_2106

Basic information of circular RNA
PanCircBase ID:

mmu_ciNbea_2106

mm39_Chr. Position ID:

chr3|55554992|55557098|-

Gene name:

Nbea

Transcript:

ENSMUST00000029374.8

CircRNA type:

Circular intronic (ci)RNA

Exon/Intron count:

1

Exon/intron indexes:

50

Exon/intron offsets:

0

Genomic length:

2106

Exon/intron sizes in nt:

2106

Flanking exon/introns:

chr3:55554969-55557098

Splice length:

2106

Other database IDs:

Human Ortholog IDs:
Mature spliced Sequence:

GTAAGGCAGCAGCCTTGGAGGGGTTTTTCTTTCCTTTGTGTCCGGGTAGAAATCAAATAAAATGGTATTTCAGGTATTTCAGGGCTTTTCAGAGGCTTCCCAGTTTATCTGTTGACTTGGAAGCTCAAGGGTATGCTAGAAGAAAGCAGCTTTTACTTCTCCATAAGCCTTTAAGGGTACACACTGCCCCCCAATTAAATTCGATCTGTAAAGCAGGAAGTATAAACACAAGCCAACAGAAGAGTAGTTCGTTTTCAGAGAAACAAGCGATTGATTCCAAAGGCAGTTTGTGGCTCCTGCAGAGGCTGGGGGACAAAACAGACTAGTCTCAGGTAAGGGCTCCAAACTCTGTTTCTGCCACTAGTTAGTTAGTAAGTGACTGGGGATGAGCACTCTATAGCTGTGAGTTGTGGGGTTTACTCATCCCTGCACTGAGATCCCAGGGCCTGCTTCTGAACCTTCGTTAGGCCAGCCCTATGATGAAAGCTCCAGTCGATGCCAGCTCGTCTCATCAAGAGCTGATCAAATTAGATCTTCAGTCCTACTTTTCAAGGAAATAATTGCATGCTTTATTCTAAAATTTAAAGGTCCATTCTCATAACAAAGCAGTCCCCTTTTAGTTTATCAGCACATAGCAAGCATTCCCTCTTTGTATTTAATTCTATGAAGGCTGATATACTTTTATTGTATTTTTTAATGATGTCTCCCTAGTTTGTTTGTTTTTTATAATACTTCAACAAATGTTTCAAGACAGAAACAGTTGCAAATGATCTCAGATGATCTATGTGTATCCACAATCTTGAGGACATGCCTGTCTGTCCCCTCAGTGGGGTGAAGAGCTCTGAGATAGGATGGCAGTGGGTGTGTGGCAACCGTGTAAGCGTACATTTCTTTGACAGAAAGAATGTTTATGCTTTTCATTTACTTAACATATTTCTGATCCCTCCATGTGTCAGATGACTAAGGCATGAGGCACAGTGTCAGGTGTGTTCTCCATACTACTAAGAAGCAGGCAGCCCACACCCGGGGAAACTACACACTTGCTTTAAACCCTTCTGCAGCAACCAACCACATAGTTTCATCCCTGTAGGCACAGTGTCTGTCTTTGATTGCACTTGGTCATTCTGTGTAGCAAAGTAGAAAAAAGTCCCCAGATGGCTCCCAGCCATGGTGCAAACAGACATATGGTCTTAGAGGGCCAGGTTCTTACCCGTTCTTGTATGAAATGGCTTAGTGGGGGAGGCTTAATCCGCTTTACTTACTTTTCTCTGCTTTTGATGATGATGATGATGACGACTGTCTTGGGGGAATGCCCAGTTAGAACTCATTGTCTTCCTACAAGGAATTATCAGACACCAAATTGGCATGGAGCTGGCAAAAAGAAAATGATCCATAGGAAAAATGCTCAGATGTGTAGGGAAGGGAAGTGGTAATTATTTCCAGCGTCCTTATTTTATGTTTTGTATAATTGAGTTTATAGTGCTCTGTACTGCTTGTAGTATCTGCTATCACCTCATCTGCTAGATGTTTACGAAGAAAAGCCCAAAAAAGCGCTGGCCCTCAGTAAACTGAACCTGTAAGAGAGAGAAGGCACAAGCCCTAAATAGTAAGTCAGCTCCGGAGCCCAGACACTGGCCAGAGTTCCAGGCTACTCTGCGGAGGTTATGCTTCAATTATTTATACTGTGGCCCTAGGTTAGCCCAATAAAGATGACAATTCCAGCCAAATCACTTTATATTTCATGCTAACAACATCAGCCACGGATTAACTAATTTTCCCTCAAACTGATTTTTTTAAACTTCCCATAACAATTATGATGCATCTTGTGGCTATTTCTGTGAGCTAACTGTACATGTGGCAGTCTGACCATATATACAAACTGAGACTGACTCTTAGCAACAGAGCATGCTGCCTCAGTGACGTCAGAGGCTCTGTTCTCTTTTCTCTATGCCTTCTTCAGGTGAAGCTGCGCTCTCTGGGTGCGCTGGCCAGCGAGACAGTTCCAATGGCCTGGAGCCTCTGCCTGTTATCACACTAGCCTTGTCTGTCTGCACCTCCTAGCCCCAGACCTTCCACTAACCAAGTTGTCCTTTCTGTTTCCTTCTG

Divergent primers for circular RNA PCR

Primer Set-1

Forward primer
Tm
Reverse primer
Tm
Product size

GCCCCAGACCTTCCACTAAC

60.04

GGAAGCCTCTGAAAAGCCCT

59.96

146

Primer Set-2

Forward primer
Tm
Reverse primer
Tm
Product size

GTCTGTCTGCACCTCCTAGC

59.83

GGAAGCCTCTGAAAAGCCCT

59.96

164

PCR template sequence:

TGGCCTGGAGCCTCTGCCTGTTATCACACTAGCCTTGTCTGTCTGCACCTCCTAGCCCCAGACCTTCCACTAACCAAGTTGTCCTTTCTGTTTCCTTCTGGTAAGGCAGCAGCCTTGGAGGGGTTTTTCTTTCCTTTGTGTCCGGGTAGAAATCAAATAAAATGGTATTTCAGGTATTTCAGGGCTTTTCAGAGGCTTCC

Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs

25

Interacting miRNAs (#binding sites)

mmu-miR-199a-5p(1), mmu-miR-7b-5p(1), mmu-let-7b-5p(1), mmu-miR-30e-5p(1), mmu-miR-30a-5p(1), mmu-miR-130a-3p(1), mmu-miR-30c-5p(1), mmu-miR-328-3p(1), mmu-miR-7a-5p(1), mmu-miR-138-5p(1), mmu-miR-185-5p(1), mmu-miR-495-3p(1), mmu-miR-30d-5p(1), mmu-miR-30b-5p(1), mmu-miR-130b-3p(1), mmu-miR-721(1), mmu-miR-362-5p(1), mmu-miR-340-5p(1), mmu-miR-301a-3p(1), mmu-miR-98-5p(1), mmu-miR-690(1), mmu-miR-673-5p(1), mmu-miR-532-5p(1), mmu-miR-3087-3p(1), mmu-miR-452-3p(1)

siRNAs for circular RNA silencing
Junction sequence

CTGTTTCCTTCTGGTAAGGCAGCAGC

siRNA sets

NA

Protein-coding potential of circular RNAs

CPAT analysis

CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length

NA

NA

NA

NA

NA

ORF sequence:

NA

Peptide sequence:

NA

IRESfinder result

IRESfinder score

0.787629813

IRES/non IRES

IRES

riboCIRC information

riboCIRC ID

NA

NA

Evidence
Peptide sequence:

NA

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