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mmu_circRims2_311
Basic information of circular RNA
PanCircBase ID:
mmu_circRims2_311
mm39_Chr. Position ID:
chr15|39208705|39209016|+
Gene name:
Rims2
Transcript:
ENSMUST00000082054.12
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
1
Exon/intron indexes:
5
Exon/intron offsets:
0
Genomic length:
311
Exon/intron sizes in nt:
311
Flanking exon/introns:
chr15:39155707-39208705|chr15:39209016-39300392
Splice length:
311
Other database IDs:
circBase: mmu_circ_0005633, CIRCpedia: MMU_CIRCpedia_19111, circAtlas: mmu-Rims2_0029
circBase: hsa_circ_0135406, circAtlas: hsa-RIMS2_0043, CIRCpedia: HSA_CIRCpedia_89560
Human Ortholog IDs:
Mature spliced Sequence:
GTTATGTGGGTGTGTAATTTGTGCCGAAAACAACAAGAAATCCTCACTAAATCAGGAGCATGGTTTTATAATAGTGGGTCTAACACACTGCAGCAACCTGATCAAAAGGTTCCTCGAGGGCTTCGAAATGAGGAAGCCCCTCAGGAGAAGAAAGCAAAACTACACGAGCAGCCCCAGTTCCAAGGAGCCCCAGGTGACTTATCAGTACCTGCAGTTGAGAAAGGCCGAGCTCATGGGCTCACAAGACAGGATACTATTAAAAATGGATCAGGAGTGAAGCACCAGATTGCCAGTGACATGCCTTCAGACAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AGCTCATGGGCTCACAAGAC
60.04
GCTGCAGTGTGTTAGACCCA
60.25
178
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AGCTCATGGGCTCACAAGAC
60.04
TGCTGCAGTGTGTTAGACCC
60.25
179
PCR template sequence:
CAGTTGAGAAAGGCCGAGCTCATGGGCTCACAAGACAGGATACTATTAAAAATGGATCAGGAGTGAAGCACCAGATTGCCAGTGACATGCCTTCAGACAGGTTATGTGGGTGTGTAATTTGTGCCGAAAACAACAAGAAATCCTCACTAAATCAGGAGCATGGTTTTATAATAGTGGGTCTAACACACTGCAGCAACCTG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
3
Interacting miRNAs (#binding sites)
mmu-miR-340-5p(1), mmu-miR-224-5p(1), mmu-miR-207(1)
siRNAs for circular RNA silencing
Junction sequence
TGCCTTCAGACAGGTTATGTGGGTGT
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCRIMS2_311_ORF_1
0.683
0.095392188
0.651133116
585
ORF sequence:
ATGTGGGTGTGTAATTTGTGCCGAAAACAACAAGAAATCCTCACTAAATCAGGAGCATGGTTTTATAATAGTGGGTCTAACACACTGCAGCAACCTGATCAAAAGGTTCCTCGAGGGCTTCGAAATGAGGAAGCCCCTCAGGAGAAGAAAGCAAAACTACACGAGCAGCCCCAGTTCCAAGGAGCCCCAGGTGACTTATCAGTACCTGCAGTTGAGAAAGGCCGAGCTCATGGGCTCACAAGACAGGATACTATTAAAAATGGATCAGGAGTGAAGCACCAGATTGCCAGTGACATGCCTTCAGACAGGTTATGTGGGTGTGTAATTTGTGCCGAAAACAACAAGAAATCCTCACTAAATCAGGAGCATGGTTTTATAATAGTGGGTCTAACACACTGCAGCAACCTGATCAAAAGGTTCCTCGAGGGCTTCGAAATGAGGAAGCCCCTCAGGAGAAGAAAGCAAAACTACACGAGCAGCCCCAGTTCCAAGGAGCCCCAGGTGACTTATCAGTACCTGCAGTTGAGAAAGGCCGAGCTCATGGGCTCACAAGACAGGATACTATTAAAAATGGATCAGGAGTGA
Peptide sequence:
MWVCNLCRKQQEILTKSGAWFYNSGSNTLQQPDQKVPRGLRNEEAPQEKKAKLHEQPQFQGAPGDLSVPAVEKGRAHGLTRQDTIKNGSGVKHQIASDMPSDRLCGCVICAENNKKSSLNQEHGFIIVGLTHCSNLIKRFLEGFEMRKPLRRRKQNYTSSPSSKEPQVTYQYLQLRKAELMGSQDRILLKMDQE
IRESfinder result
IRESfinder score
0.566778876
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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