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mmu_circGm33228_1459
Basic information of circular RNA
PanCircBase ID:
mmu_circGm33228_1459
mm39_Chr. Position ID:
chr18|26155558|26345434|+
Gene name:
Gm33228
Transcript:
ENSMUST00000234272.2
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
12
Exon/intron indexes:
2,3,4,5,6,7,8,9,10,11,12,13
Exon/intron offsets:
0,98135,100829,121369,122011,123020,138943,183262,185531,186033,188702,189792
Genomic length:
189876
Exon/intron sizes in nt:
215,178,148,122,164,75,49,60,106,94,164,84
Flanking exon/introns:
chr18:26145380-26155558|chr18:26345434-26348556
Splice length:
1459
Other database IDs:
circAtlas: mmu-intergenic_012587
Human Ortholog IDs:
Mature spliced Sequence:
GCCTAAATGACAAGTGACACTCCTTTGGGACCTTCACCAGACCCTTCATATCATTACCAGTAAGGTGCGTCTACAGGAACCCAGGACACTTGTACATTCCTACAACATCAGTATCTTCAAGAAATCTCTATTCTGACAAAATTCTGCACGTGGCCTTAACAATTTGATAAAAGTTATTGCTGAGTCCTTGCCAGTGTCTGACAGCATTGTCCCAGATGAGATTACAAAGCTCCAGTAAAGAGAAGTTGCCTAAAGCCACCTAAGTAATTAAAAGGAAGCAAAACCTTGAAAATGGAGGAGTATAGCAGCTATTATTTGGACCTTTTGTTTGTTTCTTTCCTCTGACTGCTCCATAGGATGTAGATATTGTAGGCATGAACATCTGATATTGAGGAGGGCCAAGCATTCAAGTGTCCGAAATTAGTAGGACTTTACAAGGTAGAAGCTGAAGAGAAAGAATTCCAAGGACAAAGGAGGGAATGGAGAGATACACAGAGAAGATAACAGATTCCATGACAGTGGGTCCTCTGACTACTACAAGACTTACTGACTTCTCTTCAGCCAGACTTTGTTTACATCACGATTGAGTCTGCTTTTAATCAAGCCAGCAATATGTCAATGCCCAATCCAATGGAAATTGGTGGTTTTCATCTTGACCCATAGGATTGGGAATGTTGTTTAAACAAAGGAAATGGATAAAATGACAGAGCAGTGGTGGCCTCCTCAGCGTAACACACTTTGTATTGTTTGACTTCTTTTGATCCATCTAACGCTCATACATCTCAACTGTACTGTTGTGTGGGTATTTCACTCATTTTCACTCACAGGGTGAAAAACAAAAATGCTGATTAGAAGAAAAGTATGTTCATGACCTTGAAGTGGGCAGATAGTTGTTAAACACGGATGAAATGCAATGCCATGCTAAGAAGTATATGTGGGCTTCTGCAGATGAATTTGAAGAATACAATTTCATAAGGATGAAGTCTCGAGGATCATTAAAGGGATGCTACTTCTATGCCTCTCTCCATGAGCCTGCAGCTGGATGTTTCAGCTAAGCTCTCTGCCTGTCAATCCCCTGAGATCTACTCCCTGCCTCACCCCCATGCTCATGTTACAGGAACGGGTGGAAGGATATCTAGCTGAATTGAAATTGACAAAACTGGGTAACTCAGACAGGGCAGCCTCCGGAGAGGCCTTTAACCACAAAAGAGACACCAGCCTCTGGGGTGATAATCAAAGATGAGTGAAAGACCGTGTTACCCAAGTGTCAGAAGAAACACAAATCTGTAAAATATAACTAGCAAGACCATGCAGAGAGGAAATGATACTGTGAATATTTACAGCAGACGACTTCACTTCTGAATTGGAGACAGAGAGAATATTATGTAGACAGAGCTCAGACCTAGCAGTTGGAAAACTGACCTCCATCCCTTGGAGCTGACTAAGAAGATGAACCCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GCTCAGACCTAGCAGTTGGA
59.1
GGTTCCTGTAGACGCACCTT
59.68
146
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AGCTCAGACCTAGCAGTTGG
59.1
GGTTCCTGTAGACGCACCTT
59.68
147
PCR template sequence:
TGAATTGGAGACAGAGAGAATATTATGTAGACAGAGCTCAGACCTAGCAGTTGGAAAACTGACCTCCATCCCTTGGAGCTGACTAAGAAGATGAACCCAGGCCTAAATGACAAGTGACACTCCTTTGGGACCTTCACCAGACCCTTCATATCATTACCAGTAAGGTGCGTCTACAGGAACCCAGGACACTTGTACATTCC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
14
Interacting miRNAs (#binding sites)
mmu-miR-136-5p(2), mmu-miR-27a-3p(1), mmu-miR-1a-3p(1), mmu-miR-206-3p(1), mmu-miR-223-3p(1), mmu-miR-30e-5p(1), mmu-miR-101a-3p(1), mmu-miR-122-5p(1), mmu-miR-211-5p(1), mmu-miR-204-5p(1), mmu-miR-30a-5p(1), mmu-miR-216a-5p(1), mmu-miR-10a-5p(1), mmu-miR-495-3p(1)
siRNAs for circular RNA silencing
Junction sequence
AAGATGAACCCAGGCCTAAATGACAA
siRNA sets
TTGTCATTTAGGCCTGGGT, TTTAGGCCTGGGTTCATCT, ATTTAGGCCTGGGTTCATC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
NA
NA
NA
NA
NA
ORF sequence:
NA
Peptide sequence:
NA
IRESfinder result
IRESfinder score
0.709802868
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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