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mmu_ciLtbr_1478

Basic information of circular RNA
PanCircBase ID:

mmu_ciLtbr_1478

mm39_Chr. Position ID:

chr6|125287527|125289005|-

Gene name:

Ltbr

Transcript:

ENSMUST00000032489.8

CircRNA type:

Circular intronic (ci)RNA

Exon/Intron count:

1

Exon/intron indexes:

6

Exon/intron offsets:

0

Genomic length:

1478

Exon/intron sizes in nt:

1478

Flanking exon/introns:

chr6:125286529-125289005

Splice length:

1478

Other database IDs:

Human Ortholog IDs:
Mature spliced Sequence:

GTAAGACACCGGGCTGAGGAACACAAGGCAGGGTCGGTCTGGGAAGATGCCTCAGCCCCCCTCATCCACAGAAACAGGGAACAGTGCATCTTTCTTCCCAGGGTTAGACAAAGTCAGAAACATTTCTTCTGAAGAAATCAGAAGGAGGTAGCGTGTAGTTCCATGGTTAGAACGCTTGCTTGGGATACATAAGACCCTGAGTTTGGACCAAAAGAAAAAAAACGAAAACTTGGAAAGGCAGGTGTGGTGGTGCACCCTTGTAATCCCCAGCGCTTGAAAGGCTGCGGCAGAAGAATCAAGAGTTTGAGGCTAGCCTTGGCTACAGAGTGAGCCTGTCTCCATAGAGGGCCTGGAGATTAGAACATCCCTAGACTCTTTTCTTACACTTTCAAAATTATACATATTATGCCAGGAAACATTCCTGTGCTGTGACGTAATTCTAACCGGCTTCATCACTATGCTTGGATGCGATTCCGTCATAGCCTTCCTTCACTAATTGAATACCTCGTTGTTCACTTACACACATCTGTTGGAGACATGCTCCCCCACTGGGCTCTTTCTAGGTTTTCTTGTTTCTTGGTTTCTGTCTTCGAGGAAACCCACTAGTTTCCCAGCCTGGTGGTTGACTATAAGTTCTTCTGATGACTCTAATCGCTACTAATTGGCAGAATGTAGTAACATTTTTGAGTGACCAGACTTTTGTAATTATAGCTTCCACATCCTGAGAACAACTCTGAACCTCTCAGTGATTCCACTTAAGCTGCCTAATGATTCTATAAACTGGGATTATTCATTCTCACTGATGGGGGGAGAAAGCTGAGATGTTAAATGACTTGCTGGAGATCACGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTATGTATGTGTGTGTGTATGTGTGTGTATGTATGTGTGTATATGTGTGTGTGTTTGTGTATGTGTGTGTGTGTGTGTGTGTGTCTGTATGTGTGTGTGTGTAAATCACGTTATTACTGTCTATATCTAGGTCTTCCTTACTTGGGGCTCATTTATAAGGTACACAAGCTATAAAATGTCCTAAGCCTTCACACCAGTTGTGGAAGCACACGCCTGTCACCCCTACATTTGGGAGGTGTAGCCAGGACCCAGGCTGGGCTGCATAAGACCCTGTCTCTGAGAGAAGGAGGAGAGAAAGAGGGAATGAATGAAAATTCAGCTAAAATTCCCCCACTGAACATAGAACATTTCCACTCTTACTACCTTGGTCTATCCCTTCCAACACATTCCCCGTGCATTTCTATTCATATAATCTTCTAGACTAAAAGTGGGGTGATAGAAGTGTTTTATACTTGACTTTTTTGATAAGGAGAAATTGGCAGTAGATGCTGAACCACTGAGATGATATACAAGCTTCCCTTACACACACACACACACACACACACACACACACACACACACACACATTCCCTTATATACTAGTATATTCCCTT

Divergent primers for circular RNA PCR

Primer Set-1

Forward primer
Tm
Reverse primer
Tm
Product size

CACACACACACACACACACA

59.13

TGTTTCTGTGGATGAGGGGG

59.3

141

Primer Set-2

Forward primer
Tm
Reverse primer
Tm
Product size

CACACACACACACACACACA

59.13

TGTTTCTGTGGATGAGGGGG

59.3

143

PCR template sequence:

CCACTGAGATGATATACAAGCTTCCCTTACACACACACACACACACACACACACACACACACACACACACACATTCCCTTATATACTAGTATATTCCCTTGTAAGACACCGGGCTGAGGAACACAAGGCAGGGTCGGTCTGGGAAGATGCCTCAGCCCCCCTCATCCACAGAAACAGGGAACAGTGCATCTTTCTTCCCA

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

16

Interacting miRNAs (#binding sites)

mmu-miR-466d-3p(6), mmu-miR-466b-3p(5), mmu-miR-1187(3), mmu-miR-206-3p(2), mmu-miR-690(2), mmu-miR-466a-5p(2), mmu-miR-574-5p(2), mmu-miR-7b-5p(1), mmu-miR-7a-5p(1), mmu-miR-680(1), mmu-miR-466p-5p(1), mmu-miR-190b-5p(1), mmu-miR-335-3p(1), mmu-miR-669d-5p(1), mmu-miR-484(1), mmu-miR-3470b(1)

siRNAs for circular RNA silencing
Junction sequence

AGTATATTCCCTTGTAAGACACCGGG

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

0.735586513

IRES/non IRES

IRES

riboCIRC information

riboCIRC ID

NA

NA

Evidence
Peptide sequence:

NA

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