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mmu_ciLsm6_933

Basic information of circular RNA
PanCircBase ID:

mmu_ciLsm6_933

mm39_Chr. Position ID:

chr8|79546743|79547676|-

Gene name:

Lsm6

Transcript:

ENSMUST00000130325.8

CircRNA type:

Circular intronic (ci)RNA

Exon/Intron count:

1

Exon/intron indexes:

1

Exon/intron offsets:

0

Genomic length:

933

Exon/intron sizes in nt:

933

Flanking exon/introns:

chr8:79546714-79547676

Splice length:

933

Other database IDs:

Human Ortholog IDs:
Mature spliced Sequence:

GTGAGCCCGCGGCCTGGGAGGAATGAATGGGTGCGGGCAGGCACTCCGGGTGGGAGCGGCTGGCGTAGGCCGCGGATGGTCCGGGCTGGCGGGGAGCGGCTCGAGCCGGGCCTGCGTCCCAGGAGATGCTCGCTGGTCTGGGCCACGCGGGCTCGCGGTGCCGGGCGCGCTCCCGTGGCGCGCGCGCTTCGCGCCGATTGGGGTGAGCGCCCAGGGTTACGGTGGCGCGCGACTTCGGCGCCCTCCTCCACCCGCGAGCCCTGCGCGACGGAAAGTAAATACAGACGAGCGGAGGAAATGGTCCTTGCTGACGGCCTCGGCACACCAACTCCCTTTCTCTTGTGTGGGCCTGTTTCTGTTTCAGCTAAGACCACCAAGTTTTTTAACCACACACCAGTATTTAGTTTTATACTTACATTAAAATGAGACAAGTTGTGATTTTAAAATTCATTGATCTCGTTTGGGCCCCCTGTTTTATTGTGTGGATCTCATAAATTATTCAGCTGTTTCCCAGGCTGACGTCTTTGGGTGTGAGTTTTTTGCTTCATTTTCGCATCCCGAACGATATCGTGATGCCTTAACTTCTATTCCTCAAATTTTCAATTACTAGCATAGATGGTTCTTGCACATTGCGAGACTGGTTTTTCTTAAAGTGTTAGTAATTTATTTGGCTCTTCAAAACCGTGAAAGGGCCTACTGTGGTTCTAAAGTAGCAAAGCACAGCCTCACTTTGGAATTACTATTGGGAGTTTGAACTTGCAGGCTGTGACTGTGTGTGTGTGTGTGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGATAGAGAGACAGACAGACAGACAGACAGACAGAGACAGACAGAGAGACAGACTGACTGACTGACTGCACATGTTAATCAGATGCTGGAACAGGAAGAGACAGCCAGTAC

Divergent primers for circular RNA PCR

Primer Set-1

Forward primer
Tm
Reverse primer
Tm
Product size

CAGACAGACAGACAGACAGACA

59.38

CTGCCCGCACCCATTCATTC

62.01

140

Primer Set-2

Forward primer
Tm
Reverse primer
Tm
Product size

CAGACAGACAGACAGACAGACA

59.38

CTGCCCGCACCCATTCATT

61.05

140

PCR template sequence:

CAGACAGACAGACAGACAGACAGAGACAGACAGAGAGACAGACTGACTGACTGACTGCACATGTTAATCAGATGCTGGAACAGGAAGAGACAGCCAGTACGTGAGCCCGCGGCCTGGGAGGAATGAATGGGTGCGGGCAGGCACTCCGGGTGGGAGCGGCTGGCGTAGGCCGCGGATGGTCCGGGCTGGCGGGGAGCGGC

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

8

Interacting miRNAs (#binding sites)

mmu-miR-342-3p(2), mmu-miR-150-5p(1), mmu-miR-326-3p(1), mmu-miR-680(1), mmu-miR-377-3p(1), mmu-miR-300-3p(1), mmu-miR-452-3p(1), mmu-miR-338-3p(1)

siRNAs for circular RNA silencing
Junction sequence

AGACAGCCAGTACGTGAGCCCGCGGC

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

0.635698674

IRES/non IRES

IRES

riboCIRC information

riboCIRC ID

NA

NA

Evidence
Peptide sequence:

NA

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Institute of Life sciences, Bhubaneswar, India

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