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mmu_ciPbrm1_745

Basic information of circular RNA
PanCircBase ID:

mmu_ciPbrm1_745

mm39_Chr. Position ID:

chr14|30828305|30829050|+

Gene name:

Pbrm1

Transcript:

ENSMUST00000112098.11

CircRNA type:

Circular intronic (ci)RNA

Exon/Intron count:

1

Exon/intron indexes:

27

Exon/intron offsets:

0

Genomic length:

745

Exon/intron sizes in nt:

745

Flanking exon/introns:

chr14:30828305-30829065

Splice length:

745

Other database IDs:

​

​

Human Ortholog IDs:
Mature spliced Sequence:

GTACAGTGATACGCCCATGACTTGCCTTTTTAGTTCTAGCCCTTAGCAGACTTAAACCAGAGTAGTAGACATTTTTTGTTTGAGATATCAGTTAGCCTAGGCTGGCTTCAGACTTCTTGTGTATTTAAGGTGGGCCTTGAACTCTTAGTCTTCTTGCCTCCATTTCCCAAACAAGCACTTCGAGTACAGGGGTACACTACCACACTTGATGTGTGAATTTTTGCCTAATTATTTTTAATTAGCAAAAAGCATACTTATATCATTAAGCCAATAATAATTTCTTTTACATTTCATAGTGATGGTTTAATAGGAGTTTAGAAGATTCTTGCCTTGTAGACAAGAAGCAATAAGGAATGTTATTATGCTCTTACACCTTAGCTTTCAGCGCCCACACACAAGATCTTGTCTCCACTTCAGCCTCCTGAGCAATAGGACTATAGATACAGTCTGCCACACCTGGATGCCTATATCTTTAATTTCCCCTTCCTTAGGACTTCATCTTTTTGTTGAGGTGATCCTTCTTATATTTATTTTCCTCATTCAGAATTTTCTTGAGATTTAATTGTGAGGTCACCATTGTAGACTGTAGTCATGGAATTCAGTGAAATTTTTACTTACTTTGCACAAGACAAGGTAGAGGTATATTTTGGCCAAGAAAATGTCAGCTACAAGCTGAATATGTCTATAAAACTTCATTGTATCATATATGTCTGGCTTCTAGAAACTGTAAGGTAACCTATAATAG

Divergent primers for circular RNA PCR

Primer Set-1

Forward primer
Tm
Reverse primer
Tm
Product size

TGGCCAAGAAAATGTCAGCT

58

TGGTTTAAGTCTGCTAAGGGCT

59.36

157

Primer Set-2

Forward primer
Tm
Reverse primer
Tm
Product size

TTGGCCAAGAAAATGTCAGCT

58.68

TGGTTTAAGTCTGCTAAGGGCT

59.36

158

PCR template sequence:

TTTGGCCAAGAAAATGTCAGCTACAAGCTGAATATGTCTATAAAACTTCATTGTATCATATATGTCTGGCTTCTAGAAACTGTAAGGTAACCTATAATAGGTACAGTGATACGCCCATGACTTGCCTTTTTAGTTCTAGCCCTTAGCAGACTTAAACCAGAGTAGTAGACATTTTTTGTTTGAGATATCAGTTAGCCTAG

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

11

Interacting miRNAs (#binding sites)

mmu-miR-137-3p(1), mmu-miR-1a-3p(1), mmu-miR-19b-3p(1), mmu-miR-19a-3p(1), mmu-miR-203-3p(1), mmu-miR-320-3p(1), mmu-miR-434-3p(1), mmu-miR-539-5p(1), mmu-miR-669d-5p(1), mmu-miR-3065-5p(1), mmu-miR-3061-5p(1)

siRNAs for circular RNA silencing
Junction sequence

TAACCTATAATAGGTACAGTGATACG

siRNA sets

TATCACTGTACCTATTATA

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

0.894396488

IRES/non IRES

IRES

riboCIRC information

riboCIRC ID

NA

NA

Evidence
Peptide sequence:

NA

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