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mmu_circRbm27_884
Basic information of circular RNA
PanCircBase ID:
mmu_circRbm27_884
mm39_Chr. Position ID:
chr18|42432207|42438879|+
Gene name:
Rbm27
Transcript:
ENSMUST00000046972.14
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
5,6,7,8
Exon/intron offsets:
0,1107,2580,6537
Genomic length:
6672
Exon/intron sizes in nt:
1,94,26,12,94,135
Flanking exon/introns:
chr18:42431589-42432207|chr18:42438879-42447035
Splice length:
884
Other database IDs:
CIRCpedia: MMU_CIRCpedia_19837, circAtlas: mmu-Rbm27_0023
circBase: hsa_circ_0074427, circAtlas: hsa-SCAF8_0001
Human Ortholog IDs:
Mature spliced Sequence:
AACACGTGAGAAGAAAAGAGAAGATGGCAAGTGGAGAGACTATGAGCGGTACTACGAGCGGAATGAGCTGTATCGGGAGAAGTATGACTGGAGAAGGGGCAGGAGCAAGAGCAGGAGTAAGAGCCGAGGCTTGAGTCGGAGTAGAAGCCGGAGCAGGGGCCGCAGCAAAGACCGGGATCCAAACAGGAACGTTGAGCACAGGGAAAGATCAAAGTTTAAGAGCGAAAGAAATGACCTGGAGAGCTCTTATGTGCCTGTGTCTGCTCCACCTCCAAGCTCTTCTGAGCAGTATTCCTCTGGGGCACAGTCTATTCCCAGCACTGTCACTGTGATTGCACCTGCGCACCATTCTGAGAACACAACTGAGAGCTGGTCTAATTACTATAACAATCATAGCTCTTCCAATTCTTTTGGTCGAAACCCACCACCAAAGAGGCGCTGCAGAGATTACGATGAAAGAGGATTTTGTGTACTTGGTGACCTTTGTCAGTTTGATCATGGAAATGATCCTCTAGTTGTTGATGAAGTTGCTCTGCCAAGTATGATTCCTTTCCCACCCCCTCCTCCTGGGCTTCCTCCTCCACCACCTCCCGGAATGTTAATGCCTCCAATGCCAGGTCCAGGCCCAGGCCCTGGTCCTGGCCCTGGCCCTGGTCCCGGCCCAGGCCCAGGCCCTGGTCATAGTATGAGACTTCCTGTTCCTCAAGGACATGGTCAGCCTCCACCTTCTGTTGTGCTTCCCATACCAAGACCTCCCATTTCACAGTCAAGTTTAATAAACAGCCGTGACCAGCCTGGGACAAGTGCAGTGCCCAATCTTGCACCAGTGGGAGCAAGACTACCTCCTCCTTTACCGCAGAACCTCCTTTATACAGTATCAGAAA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ACAAGTGCAGTGCCCAATCT
60.18
CCGATACAGCTCATTCCGCT
59.97
161
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GACAAGTGCAGTGCCCAATC
59.76
CCGATACAGCTCATTCCGCT
59.97
162
PCR template sequence:
CGTGACCAGCCTGGGACAAGTGCAGTGCCCAATCTTGCACCAGTGGGAGCAAGACTACCTCCTCCTTTACCGCAGAACCTCCTTTATACAGTATCAGAAAAACACGTGAGAAGAAAAGAGAAGATGGCAAGTGGAGAGACTATGAGCGGTACTACGAGCGGAATGAGCTGTATCGGGAGAAGTATGACTGGAGAAGGGGC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
9
Interacting miRNAs (#binding sites)
mmu-miR-27b-3p(1), mmu-miR-27a-3p(1), mmu-miR-429-3p(1), mmu-miR-200b-3p(1), mmu-miR-92a-3p(1), mmu-miR-298-5p(1), mmu-miR-196a-5p(1), mmu-miR-25-3p(1), mmu-miR-207(1)
siRNAs for circular RNA silencing
Junction sequence
ACAGTATCAGAAAAACACGTGAGAAG
siRNA sets
TTCTCACGTGTTTTTCTGA, CTTCTCACGTGTTTTTCTG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCRBM27_884_ORF_1
1.2456
-0.043832825
0.573206848
477
ORF sequence:
ATGATTCCTTTCCCACCCCCTCCTCCTGGGCTTCCTCCTCCACCACCTCCCGGAATGTTAATGCCTCCAATGCCAGGTCCAGGCCCAGGCCCTGGTCCTGGCCCTGGCCCTGGTCCCGGCCCAGGCCCAGGCCCTGGTCATAGTATGAGACTTCCTGTTCCTCAAGGACATGGTCAGCCTCCACCTTCTGTTGTGCTTCCCATACCAAGACCTCCCATTTCACAGTCAAGTTTAATAAACAGCCGTGACCAGCCTGGGACAAGTGCAGTGCCCAATCTTGCACCAGTGGGAGCAAGACTACCTCCTCCTTTACCGCAGAACCTCCTTTATACAGTATCAGAAAAACACGTGAGAAGAAAAGAGAAGATGGCAAGTGGAGAGACTATGAGCGGTACTACGAGCGGAATGAGCTGTATCGGGAGAAGTATGACTGGAGAAGGGGCAGGAGCAAGAGCAGGAGTAAGAGCCGAGGCTTGA
Peptide sequence:
MIPFPPPPPGLPPPPPPGMLMPPMPGPGPGPGPGPGPGPGPGPGPGHSMRLPVPQGHGQPPPSVVLPIPRPPISQSSLINSRDQPGTSAVPNLAPVGARLPPPLPQNLLYTVSEKHVRRKEKMASGETMSGTTSGMSCIGRSMTGEGAGARAGVRAEA
IRESfinder result
IRESfinder score
0.553643041
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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