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mmu_ciCyth1_1975
Basic information of circular RNA
PanCircBase ID:
mmu_ciCyth1_1975
mm39_Chr. Position ID:
chr11|118071070|118073045|-
Gene name:
Cyth1
Transcript:
ENSMUST00000100181.11
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
9
Exon/intron offsets:
0
Genomic length:
1975
Exon/intron sizes in nt:
1975
Flanking exon/introns:
chr11:118068122-118073045
Splice length:
1975
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTAAGTCCCTCCCCCAGCTGGGCCTGCAACAGAGCCTAGGAGGAAAGGCTATGTGCACACAGGGCTGGGGGGTGGGGAAGCGGGCAGGTCACAGCAGTCCACCTCCATACCATTCTGGAGCTGTTGACAAGCAGTCACCACAGAACAGACTCCTGGACACAGACTCTGCCCTTACAAACATTGTCCTTATGTATCTGGGCACTGTGTGACCAGTCCCAAGTAGGCAGCCATACTCCCTGAGGCACTTTCCAGGGACCTGGACCCTTGGGTGGGTAAGCAGCCATATCCATCTCTCTATTCCCATTCCAGATTTACCCTGGCACTCCTGCCCACCCAGTGCATCATCACTTCCCTCTGCATCTGGCTCCCACAGGCAGTGTGCATGGCAAACCTAGAGCCCTTGGCTGCAGCACAATCCACAGCACTCTTCCTCATGCTCTGGCCCCTCGCAGTCCCAATCAACCACCAACCAGTCACAGTAATGATTGTGTCATTCAAAGAGCTGCAGTGCGCTTCTCTTCCCTCTGCCAGAAGTGAGCCTGTATTGTTAAGATTTATGGTCATGCCTTGCTAGGAAGGTGACAAAGTAGCCAAATAGCAATCAGTGGGTTCTCATGCACGCACATGTCCACCTCTGTCTGCTTTATTAATCGTCAGACATAGACAGGTCACTGAGCTCTCTGCACATGAAAGTGTGGAGGCTTTTTGACCACTAGAGAGCGTGTTCCAGTACCCTTCTGCCTTGGCCTTCCCGTATCAGGAGGGCAGATGTTGTAAGAGACCCGCTCCTCTTCCATTTGGTTACTCGACCTGTGATAAGTAGTCCTCCCACTCTTGGCCATGACTGACAGCATCCAGTAGAGCTACTGACACACCCTCTGTTGCTAACTCATCCAGATAGCAGAGGATTGACATTTCCTTTAAAAGGCCCAAAACTGTGTTGTTACATGACAGTTCTCTTTAAGACCGCTTCAACGATTACAGAGCCTTGCAGTGTCTGGACGTGGCCGGTAGCAGAAGGTCTGAAGCAAAGGCTCTGAAATGGTTACCCCACAGGCAGCCTTCTGCTCCACAGTATTCTTCCCTGACCAATAAAGAGGAATGTGCTGGAAAGTTTAAAAGTGTCCGAGTTTAGGTTTACTTCCCCCTCCAGGGAAGTTTGTCTCCCTGCGAGTGCTAAGTGTTAGCTTTGACAGCTGAGATACTAAAATTAGAGCAGAGATTATCTTGGTTCTTGTACCAGGATGGCATGTAAATTCATGAGATATCCTATATTTTTAAAACTCAAGAATTTCAGCTGAGTGAAATGATGCACACCTGTAGTCCCAGACACACAGGGGACAGAGCAGGAGAATCCCTGGGGCCCAAGAAACTGAGGTGCCAGCTTTTGCTGGTAGAGCAAGACCCCAAAGAATAAAAGTTTAACAGTGTGGGACTCATTCATCGTGAGGTCGTGGCTTCATGTTTCTAACCTCTCGATAAGGTGTTTCCATGTGACACACTGAGACTCAGCCGTGTGTCTGTGTGCTGTACAGGGCAGGACTTCGTGCCATCTGTAGTTGTCTGTATATGTCCCTGTATGCACAGAACCATAAGCATGTGTATTCTTGTGTACACACATATGTACATGTATATCCATGGGTGTACATGTGTGCATCCTTGCACACATTTTGAAAAGTGTTGAGTATCTTAAGAAAGACACTTCTCTCAGAGTGCATATCATTCACTTTGCTCTGGTTTGTCAGGAGTCTGGCAAACACTGGCCTTAGAAAAATGGATTCATGACACTGTTAGCCACGTGGGGAATACCCCACGTCTTGCCACACGGCACGGGTAGTCACTTCCTGTCGGTGTCTGCAGGCTGACCTCCCTCTCCAGGCATACATAGATGGGACTGGTACGCTGCACTTTAAGATTAAAAAGTCGGGTTTGATTTCTTTGTTTTAATTTTCTTTTCTCCCTCATTTATATGTTT
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GGACTGGTACGCTGCACTTT
60.6
CCCTGTGTGCACATAGCCTT
60.32
148
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GGACTGGTACGCTGCACTT
60
CCCTGTGTGCACATAGCCTT
60.32
148
PCR template sequence:
CAGGCATACATAGATGGGACTGGTACGCTGCACTTTAAGATTAAAAAGTCGGGTTTGATTTCTTTGTTTTAATTTTCTTTTCTCCCTCATTTATATGTTTGTAAGTCCCTCCCCCAGCTGGGCCTGCAACAGAGCCTAGGAGGAAAGGCTATGTGCACACAGGGCTGGGGGGTGGGGAAGCGGGCAGGTCACAGCAGTCC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
21
Interacting miRNAs (#binding sites)
mmu-miR-20b-5p(2), mmu-miR-134-5p(2), mmu-miR-20a-5p(2), mmu-miR-17-5p(2), mmu-miR-466a-5p(2), mmu-miR-1187(2), mmu-miR-466p-5p(2), mmu-miR-210-3p(1), mmu-miR-106a-5p(1), mmu-miR-93-5p(1), mmu-miR-199a-5p(1), mmu-miR-429-3p(1), mmu-miR-31-5p(1), mmu-miR-200c-3p(1), mmu-miR-216a-5p(1), mmu-miR-541-5p(1), mmu-miR-425-5p(1), mmu-miR-383-5p(1), mmu-miR-207(1), mmu-miR-3470b(1), mmu-miR-1199-5p(1)
siRNAs for circular RNA silencing
Junction sequence
CATTTATATGTTTGTAAGTCCCTCCC
siRNA sets
NA
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
0.758078466
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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