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mmu_circSpata5_1174

Basic information of circular RNA
PanCircBase ID:

mmu_circSpata5_1174

mm39_Chr. Position ID:

chr3|37478659|37487844|+

Gene name:

Spata5

Transcript:

ENSMUST00000108112.10

CircRNA type:

Exonic circular (circ)RNA

Exon/Intron count:

6

Exon/intron indexes:

2,3,4,5,6,7

Exon/intron offsets:

0,1578,5535,7122,8627,9128

Genomic length:

9185

Exon/intron sizes in nt:

125,158,59,645,130,57

Flanking exon/introns:

chr3:37474649-37478659|chr3:37487844-37490790

Splice length:

1174

Other database IDs:

circAtlas: mmu-Spata5_0038

Human Ortholog IDs:
Mature spliced Sequence:

TAGATGGCAAAGTTCCTAAGACATTCCAGAATTCCCTTGTTCATCTTGGACTTAACACTATGAAGTCTGCAAACATATGTATAGGTCGGCCAGTGCTCCTTACCAGTTTGGATGGAAAGCAGGAGGTTTATACAGCCTGGCCAGTTGCAGGATTTCCTGGAGGCAAGGTTGGCCTGAGTGAAATGGCACAGAAGAATGTGGGTGTGAGAGCTGGTGAGACCATCCAGGTCCAGCCTCTTTTGGGTGCTGTGCTTCAGGCTCAGGAAATGGACTTGGCGCTGAGTGACAAAGATAAGGAAATTAATGAAGAAGAACTGACTGGTTGTATTCTGAGAAAACTAGATGGCAAGATTGTTTTACCAGGCAACTTTCTATACTGTACATTCTATGGACGACTCTGCAAGTTACAAGTGTTGCAAGTGAAAGGGACAGATGGCACAACATTGGGAAAGCTTCAGAGTGCCTCTGGCACTGATGCCCAGGGAATGGCCTCTGAACATTCTAGCATGGAAAGCAGCGATGTGGATCTATCCTTCCAGCTAAGCCAGTTAGATCTGAAAGAACCTCAGAGCCCATCATCACAGAGTACTCCCTGTAAACCCACTAATGACAGAACTGTGAATAAAGCTGGTGAAGTTTTGTTGGATGTCACACAGAGCCCTAGGGATGGAAGTGGACTTGGACTAGAGGAAAGCACAGGTCTTAAGTGTAGTTTTGACTCATCCAAAGAAGGAAATACACAACCTGTCAGTGAAGAGAAACTACTAAAACCTGCTAGTGCAGGGACAAAGAGCAATACTGATACTTTTTATTTTATTTCTTCAACAACAAGAATCAATCTTCGAAAAATTTGTACAAATTCAAAAGAACAAGACAGTCAGTTCAAAGTAACTTATGACATGATTGGAGGCTTAAACAGTCAGCTGAAAGCAATAAGAGAAATAATTGAATTGCCTCTCAAGCAGCCTGAACTTTTTAAGAGTTACGGAATTCCAGCGCCTAGAGGGTTATTACTCTATGGTCCTCCAGGTACCGGAAAGACAATGATTGCTAGGGCTGTTGCTAATGAAGTTGGAGCTTATGTTTCTGTAATTAATGGTCCTGAAATTATAAGCAAATTCTACGGTGAGACTGAAGCAAGGTTACGCCAGATATTTGCTGAAGCTACTCTACG

Divergent primers for circular RNA PCR

Primer Set-1

Forward primer
Tm
Reverse primer
Tm
Product size

CGGTGAGACTGAAGCAAGGT

59.97

GAGCACTGGCCGACCTATAC

59.97

149

Primer Set-2

Forward primer
Tm
Reverse primer
Tm
Product size

ACGGTGAGACTGAAGCAAGG

59.97

GAGCACTGGCCGACCTATAC

59.97

150

PCR template sequence:

GAGCTTATGTTTCTGTAATTAATGGTCCTGAAATTATAAGCAAATTCTACGGTGAGACTGAAGCAAGGTTACGCCAGATATTTGCTGAAGCTACTCTACGTAGATGGCAAAGTTCCTAAGACATTCCAGAATTCCCTTGTTCATCTTGGACTTAACACTATGAAGTCTGCAAACATATGTATAGGTCGGCCAGTGCTCCT

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

6

Interacting miRNAs (#binding sites)

mmu-miR-1a-3p(1), mmu-miR-206-3p(1), mmu-miR-204-5p(1), mmu-miR-324-5p(1), mmu-miR-452-3p(1), mmu-miR-3065-5p(1)

siRNAs for circular RNA silencing
Junction sequence

AAGCTACTCTACGTAGATGGCAAAGT

siRNA sets

NA

Protein-coding potential of circular RNAs

CPAT analysis

CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length

CIRCSPATA5_1174_ORF_1

0.9553

0.028490444

0.991660179

1134

ORF sequence:

ATGAAGTCTGCAAACATATGTATAGGTCGGCCAGTGCTCCTTACCAGTTTGGATGGAAAGCAGGAGGTTTATACAGCCTGGCCAGTTGCAGGATTTCCTGGAGGCAAGGTTGGCCTGAGTGAAATGGCACAGAAGAATGTGGGTGTGAGAGCTGGTGAGACCATCCAGGTCCAGCCTCTTTTGGGTGCTGTGCTTCAGGCTCAGGAAATGGACTTGGCGCTGAGTGACAAAGATAAGGAAATTAATGAAGAAGAACTGACTGGTTGTATTCTGAGAAAACTAGATGGCAAGATTGTTTTACCAGGCAACTTTCTATACTGTACATTCTATGGACGACTCTGCAAGTTACAAGTGTTGCAAGTGAAAGGGACAGATGGCACAACATTGGGAAAGCTTCAGAGTGCCTCTGGCACTGATGCCCAGGGAATGGCCTCTGAACATTCTAGCATGGAAAGCAGCGATGTGGATCTATCCTTCCAGCTAAGCCAGTTAGATCTGAAAGAACCTCAGAGCCCATCATCACAGAGTACTCCCTGTAAACCCACTAATGACAGAACTGTGAATAAAGCTGGTGAAGTTTTGTTGGATGTCACACAGAGCCCTAGGGATGGAAGTGGACTTGGACTAGAGGAAAGCACAGGTCTTAAGTGTAGTTTTGACTCATCCAAAGAAGGAAATACACAACCTGTCAGTGAAGAGAAACTACTAAAACCTGCTAGTGCAGGGACAAAGAGCAATACTGATACTTTTTATTTTATTTCTTCAACAACAAGAATCAATCTTCGAAAAATTTGTACAAATTCAAAAGAACAAGACAGTCAGTTCAAAGTAACTTATGACATGATTGGAGGCTTAAACAGTCAGCTGAAAGCAATAAGAGAAATAATTGAATTGCCTCTCAAGCAGCCTGAACTTTTTAAGAGTTACGGAATTCCAGCGCCTAGAGGGTTATTACTCTATGGTCCTCCAGGTACCGGAAAGACAATGATTGCTAGGGCTGTTGCTAATGAAGTTGGAGCTTATGTTTCTGTAATTAATGGTCCTGAAATTATAAGCAAATTCTACGGTGAGACTGAAGCAAGGTTACGCCAGATATTTGCTGAAGCTACTCTACGTAGATGGCAAAGTTCCTAA

Peptide sequence:

MKSANICIGRPVLLTSLDGKQEVYTAWPVAGFPGGKVGLSEMAQKNVGVRAGETIQVQPLLGAVLQAQEMDLALSDKDKEINEEELTGCILRKLDGKIVLPGNFLYCTFYGRLCKLQVLQVKGTDGTTLGKLQSASGTDAQGMASEHSSMESSDVDLSFQLSQLDLKEPQSPSSQSTPCKPTNDRTVNKAGEVLLDVTQSPRDGSGLGLEESTGLKCSFDSSKEGNTQPVSEEKLLKPASAGTKSNTDTFYFISSTTRINLRKICTNSKEQDSQFKVTYDMIGGLNSQLKAIREIIELPLKQPELFKSYGIPAPRGLLLYGPPGTGKTMIARAVANEVGAYVSVINGPEIISKFYGETEARLRQIFAEATLRRWQSS

IRESfinder result

IRESfinder score

0.484410094

IRES/non IRES

non-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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