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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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