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mmu_ciRbm6_1235

Basic information of circular RNA
PanCircBase ID:

mmu_ciRbm6_1235

mm39_Chr. Position ID:

chr9|107665571|107666806|-

Gene name:

Rbm6

Transcript:

ENSMUST00000035201.13

CircRNA type:

Circular intronic (ci)RNA

Exon/Intron count:

1

Exon/intron indexes:

11

Exon/intron offsets:

0

Genomic length:

1235

Exon/intron sizes in nt:

1235

Flanking exon/introns:

chr9:107665571-107666806

Splice length:

1235

Other database IDs:

Human Ortholog IDs:
Mature spliced Sequence:

GTAAGGCCTCATTCCAATTTTAGGGAAGAAATTGTTCCTCCTGGATAAGAGACAGATAGTAGGGCATTGTGACTTCCAGCATGAGCTGTCTCAGGTACATACTTATACATTTTCTTTTTCTGTAGTGTGCTTTATTCTAATTATAGAATAGTTTTCATTTTTAAATAGTATGCCAGCCTGGACATGATGTTGTAAGCCTTTAATCCCAGCACTCAGGAGGCAGAGGCAGGTGAATCTGTCTGAGTACAATGCCAGCCTAAATTTCATAGCAAACTCCAGGCCAGCTAAGTGTCCATTGCAAGACCCTGTGTCTAAATGCATGCATACATACATAAATACATAGATAAGTATAAAATATTCCTGAATGCTTTAGGCTTTGACTGCCTGCTATCTTTATGGGCCAGAAAAGTTGGTATAGTTTGGGGTTTATGAGTGCTTTGTTTTATTTTTATTTATATATATACATACATACACACACACACATACATTTTTTTTTTTTGAAGCAGAATCTCACATTATACCCCATACTGGCCTGGAACTCACTGTGTGGCCCAGAGTAGCCTCAGTCTTGTGAAGGCAAAGGGTACAGCCAGAAGCTAGCACACCTGGTTGATGTGTTTAAATGTGCAGGATAAAAAGCCTCTCCGTAGATCTTCATATGTTACTATCCTAAGTCAATGTATGTAGTCTCCCATTGTCCTAGCCTCAGTCATCCTGGAATGTCTGATTCAGTTACTCTTCCTTCTTCATCTTTTTTTTTTTTTTTAAAGATTTATTTATTATTATATGTAAGTACACTGTAGCTGTCTTCAGACACACCAGAAGAGGGAGTCAGATCTTGTTACGGATGGTTGTGAGCCACCATGTGGTTGCTGGGATTTGAACTCTGGACCTTCGGAAGAGCAGTCGGGTGCTCTTACTCACTGAGCCATCTCACCAGCCCTTCCTTCTTCATCTTGACCAAAATGTGATACCTGGGAGATAACTTATCAGAGTGATGAGTTTATAGAATGACTTAGCACCTCTACTAAGTTGATTGTTTTGCTCCAATAAGTTGTTTTGCAGGAATCCCACTGTTGTTTCTGTCAGGTATCTGGAGCAGCTAACCTGCTTGCTATCTAGGTTGGTTTATTTTTCTGCACAATGAGGAAGAATTTCAGTGAATCTGTATGATTGGGCATTCCCTAGGTAGCTTTTGGTAACAGGCTTTTGATATGTCATATTTTGTATTGCAG

Divergent primers for circular RNA PCR

Primer Set-1

Forward primer
Tm
Reverse primer
Tm
Product size

GGCATTCCCTAGGTAGCTTTTG

59.05

TGCTGGAAGTCACAATGCCC

60.9

140

Primer Set-2

Forward primer
Tm
Reverse primer
Tm
Product size

GGCATTCCCTAGGTAGCTTT

56.97

TGCTGGAAGTCACAATGCCC

60.9

140

PCR template sequence:

TCTGCACAATGAGGAAGAATTTCAGTGAATCTGTATGATTGGGCATTCCCTAGGTAGCTTTTGGTAACAGGCTTTTGATATGTCATATTTTGTATTGCAGGTAAGGCCTCATTCCAATTTTAGGGAAGAAATTGTTCCTCCTGGATAAGAGACAGATAGTAGGGCATTGTGACTTCCAGCATGAGCTGTCTCAGGTACAT

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

10

Interacting miRNAs (#binding sites)

mmu-miR-297a-5p(3), mmu-miR-466a-5p(3), mmu-miR-466p-5p(3), mmu-miR-1187(2), mmu-miR-326-3p(1), mmu-miR-138-5p(1), mmu-miR-139-5p(1), mmu-miR-24-3p(1), mmu-miR-574-5p(1), mmu-miR-296-3p(1)

siRNAs for circular RNA silencing
Junction sequence

TTTTGTATTGCAGGTAAGGCCTCATT

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

0.86521412

IRES/non IRES

IRES

riboCIRC information

riboCIRC ID

NA

NA

Evidence
Peptide sequence:

NA

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