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mmu_circTbcd_617
Basic information of circular RNA
PanCircBase ID:
mmu_circTbcd_617
mm39_Chr. Position ID:
chr11|121351234|121384717|+
Gene name:
Tbcd
Transcript:
ENSMUST00000103013.10
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
6
Exon/intron indexes:
4,5,6,7,8,9
Exon/intron offsets:
0,845,1343,15130,32149,33350
Genomic length:
33483
Exon/intron sizes in nt:
1,02,14,75,61,33,46,130
Flanking exon/introns:
chr11:121350324-121351234|chr11:121384717-121387820
Splice length:
617
Other database IDs:
circAtlas: mmu-Tbcd_0055
Human Ortholog IDs:
Mature spliced Sequence:
GTTCGTGGATATAAAGTGTTTCTGCGTCTGTTTCCTCACGAAGTGGCTAATGTTCAGCCTGTGTTAGATATGTTCACAGGTCAGAACCCTAAAGACCATGAGACGTGGGAAACACGCTACATGCTTCTACTGTGGCTCTCTGTGACCTGCTTGATCCCTTTTGATTTTTCACGCCTTGATGGGAACCTGTCTACTCAAACTGGAGAAACACGAGTACCCACCATGGACCGAATTCTGCAAATAGCAGAGTCTTACTTGGTGGTCAGTGACAAGGCGCGAGATGCAGCTGCTGTCCTTGTGTCCAAATTTATCACACGTCCCGATGTCAAGCAGAGAAAGATGGCCAGCTTTCTGGACTGGAGCCTTTGCACCTTGGCCCACTCTTCCTTCCAGACCATCGAGGGTGTCATTACCATGGATGGGATGCTGCAGGCCCTGGCTCAAATATTTAAGCATGGAAAACGTGAAGACTGCCTTCCCTATGCCAACACTGTGCTCCAGTGCCTCGACGGCTGCAGACTCCCCGAGAGCAGTCATACCTCGCTGCGGAAGCTTGGTGTGAAGCTTGTCCAGAGGCTGGGGCTGACTTTCCTGAAGCCAAAGGTGGCCACGTGGAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CTCCCCGAGAGCAGTCATAC
59.33
TTCGTGAGGAAACAGACGCA
59.9
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CCGAGAGCAGTCATACCTCG
59.69
AGCCACTTCGTGAGGAAACA
59.53
142
PCR template sequence:
GACTCCCCGAGAGCAGTCATACCTCGCTGCGGAAGCTTGGTGTGAAGCTTGTCCAGAGGCTGGGGCTGACTTTCCTGAAGCCAAAGGTGGCCACGTGGAGGTTCGTGGATATAAAGTGTTTCTGCGTCTGTTTCCTCACGAAGTGGCTAATGTTCAGCCTGTGTTAGATATGTTCACAGGTCAGAACCCTAAAGACCATG
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-103-3p(1), mmu-miR-19b-3p(1), mmu-miR-18a-5p(1), mmu-miR-196a-5p(1), mmu-miR-324-5p(1), mmu-miR-214-3p(1), mmu-miR-107-3p(1), mmu-miR-3061-5p(1), mmu-miR-202-3p(1)
siRNAs for circular RNA silencing
Junction sequence
TGGCCACGTGGAGGTTCGTGGATATA
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCTBCD_617_ORF_1
0.9694
0.215516285
0.864123647
615
ORF sequence:
ATGTTCACAGGTCAGAACCCTAAAGACCATGAGACGTGGGAAACACGCTACATGCTTCTACTGTGGCTCTCTGTGACCTGCTTGATCCCTTTTGATTTTTCACGCCTTGATGGGAACCTGTCTACTCAAACTGGAGAAACACGAGTACCCACCATGGACCGAATTCTGCAAATAGCAGAGTCTTACTTGGTGGTCAGTGACAAGGCGCGAGATGCAGCTGCTGTCCTTGTGTCCAAATTTATCACACGTCCCGATGTCAAGCAGAGAAAGATGGCCAGCTTTCTGGACTGGAGCCTTTGCACCTTGGCCCACTCTTCCTTCCAGACCATCGAGGGTGTCATTACCATGGATGGGATGCTGCAGGCCCTGGCTCAAATATTTAAGCATGGAAAACGTGAAGACTGCCTTCCCTATGCCAACACTGTGCTCCAGTGCCTCGACGGCTGCAGACTCCCCGAGAGCAGTCATACCTCGCTGCGGAAGCTTGGTGTGAAGCTTGTCCAGAGGCTGGGGCTGACTTTCCTGAAGCCAAAGGTGGCCACGTGGAGGTTCGTGGATATAAAGTGTTTCTGCGTCTGTTTCCTCACGAAGTGGCTAATGTTCAGCCTGTGTTAG
Peptide sequence:
MFTGQNPKDHETWETRYMLLLWLSVTCLIPFDFSRLDGNLSTQTGETRVPTMDRILQIAESYLVVSDKARDAAAVLVSKFITRPDVKQRKMASFLDWSLCTLAHSSFQTIEGVITMDGMLQALAQIFKHGKREDCLPYANTVLQCLDGCRLPESSHTSLRKLGVKLVQRLGLTFLKPKVATWRFVDIKCFCVCFLTKWLMFSLC
IRESfinder result
IRESfinder score
0.572495645
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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