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mmu_circRalbp1_294
Basic information of circular RNA
PanCircBase ID:
mmu_circRalbp1_294
mm39_Chr. Position ID:
chr17|66164656|66166129|-
Gene name:
Ralbp1
Transcript:
ENSMUST00000024905.11
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
6,5
Exon/intron offsets:
0,1311
Genomic length:
1473
Exon/intron sizes in nt:
1,32,162
Flanking exon/introns:
chr17:66161194-66164656|chr17:66166129-66168250
Splice length:
294
Other database IDs:
CIRCpedia: MMU_CIRCpedia_26328, circAtlas: mmu-Ralbp1_0017
circBase: hsa_circ_0005158, circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_24468
Human Ortholog IDs:
Mature spliced Sequence:
ATCAGCAATCGGGTCCTGTACGTGCTTTTCACACATGTGCAAGAGCTCTTTGGCACCGTGGTCCTGAAGCAAGTAACAAGACCTCTGCGCTGGTCCAACATGGCCACGATGCCCACACTGCCAGAGACCCAAGCAGGCATCAAGGAGGAGATCAGGAGACAGGAGTTCCTTTTGAATTGTTTACATCGAGATCTGCAGGGCGGGATAAAGGACTTATCTAAAGAAGAAAGATTATGGGAAGTACAGAGGATTCTGACTGCCCTCAAGAGAAAGCTGAGGGAAGCTAAAAGACAA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CAGGGCGGGATAAAGGACTT
59.45
GTGCCAAAGAGCTCTTGCAC
60.04
155
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CAGGGCGGGATAAAGGACTT
59.45
TACTTGCTTCAGGACCACGG
59.68
174
PCR template sequence:
GCAGGGCGGGATAAAGGACTTATCTAAAGAAGAAAGATTATGGGAAGTACAGAGGATTCTGACTGCCCTCAAGAGAAAGCTGAGGGAAGCTAAAAGACAAATCAGCAATCGGGTCCTGTACGTGCTTTTCACACATGTGCAAGAGCTCTTTGGCACCGTGGTCCTGAAGCAAGTAACAAGACCTCTGCGCTGGTCCAACA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
5
Interacting miRNAs (#binding sites)
mmu-miR-34c-5p(1), mmu-miR-30a-5p(1), mmu-miR-466a-5p(1), mmu-miR-1187(1), mmu-miR-466p-5p(1)
siRNAs for circular RNA silencing
Junction sequence
AGCTAAAAGACAAATCAGCAATCGGG
siRNA sets
ATTGCTGATTTGTCTTTTA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCRALBP1_294_ORF_1
0.9872
0.19315364
0.710431336
489
ORF sequence:
ATGGCCACGATGCCCACACTGCCAGAGACCCAAGCAGGCATCAAGGAGGAGATCAGGAGACAGGAGTTCCTTTTGAATTGTTTACATCGAGATCTGCAGGGCGGGATAAAGGACTTATCTAAAGAAGAAAGATTATGGGAAGTACAGAGGATTCTGACTGCCCTCAAGAGAAAGCTGAGGGAAGCTAAAAGACAAATCAGCAATCGGGTCCTGTACGTGCTTTTCACACATGTGCAAGAGCTCTTTGGCACCGTGGTCCTGAAGCAAGTAACAAGACCTCTGCGCTGGTCCAACATGGCCACGATGCCCACACTGCCAGAGACCCAAGCAGGCATCAAGGAGGAGATCAGGAGACAGGAGTTCCTTTTGAATTGTTTACATCGAGATCTGCAGGGCGGGATAAAGGACTTATCTAAAGAAGAAAGATTATGGGAAGTACAGAGGATTCTGACTGCCCTCAAGAGAAAGCTGAGGGAAGCTAAAAGACAA
Peptide sequence:
MATMPTLPETQAGIKEEIRRQEFLLNCLHRDLQGGIKDLSKEERLWEVQRILTALKRKLREAKRQISNRVLYVLFTHVQELFGTVVLKQVTRPLRWSNMATMPTLPETQAGIKEEIRRQEFLLNCLHRDLQGGIKDLSKEERLWEVQRILTALKRKLREAKRQ
IRESfinder result
IRESfinder score
0.450594415
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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