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mmu_circTnrc6c_1462
Basic information of circular RNA
PanCircBase ID:
mmu_circTnrc6c_1462
mm39_Chr. Position ID:
chr11|117629116|117646932|+
Gene name:
Tnrc6c
Transcript:
ENSMUST00000026658.13
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
10
Exon/intron indexes:
9,10,11,12,13,14,15,16,17,18
Exon/intron offsets:
0,1576,3354,4636,8886,10953,11286,14686,17040,17672
Genomic length:
17816
Exon/intron sizes in nt:
5,81,43,17,41,38,12,08,00,00,00,00,00,000
Flanking exon/introns:
chr11:117626878-117629116|chr11:117646932-117648762
Splice length:
1462
Other database IDs:
CIRCpedia: MMU_CIRCpedia_4343, circAtlas: mmu-Tnrc6c_0010
circAtlas: hsa-SCAF8_0001
Human Ortholog IDs:
Mature spliced Sequence:
AGAGAGCCAGCCGAAGAGGCCTTGAAAAGCAACAGTATGAACCTTGACCAGGCCATGAGTGCTCTGCTGGAAAAGAAGGTGGACATGGACAAACGTGGACTGGGAATGACCGACTACAATGGAATGGTCACCAAACCCCTCGGCTGCCGCCCACCAATCTCCAAAGAGTCTTCCATGGACCGCCCCACCTTCCTTGACAAGCTCACCCTTTCTTTCTCCAATCAGGATGGCGGCCTCGTGGAAGAGCCCACGACTTCACCGTTTTTGCCTTCCCCAAGCCTGAAGCTCCCCCTTTCCAACAGTGCACTCCCCAGTCAGGCCCTGGGTGGGGTTGCCTCAGGGCTGGGCATGCAAAACTTGAACTCTTCTAGACAGATCCCGAGTGGCAATCTGGGTGTGTTTGGCAATAGCGGAGCAGCACAAGCCAGGACCATGCAGCAGCCGCCAGTGCAGCCTCTTAATTCCTCCCAGCCCAGCCTCCGCGCTCAAGTGCCTCAGTTTCTATCCCCTCAGGTTCAAGCACAGCTTTTGCAGTTTGCAGCAAAAAACATTGGTCTCAGCCCTGCACTATTAACCTCGCCAATTAACCCTCAGCATATGACGATGTTGAACCAGCTCTATCAGCTGCAGCTGGCATACCAACGTTTACAAATCCAGCAGCAGATGTTACAGGCCCAGCGGAATGTTTCCGGACCCATGAGGCAACAGGAGCAGCAAGTTGCGCGCACAATCACTAATCTGCAGCAGCAGATCCAGCAGCACCAGCGCCAGCTGGCCCAGGCCCTGCTTGTAAAGCAGCCACCACCTCCGCCACCCCCGCCGCACCTGTCTCTGCACCCCTCTGCAGGCAAATCGGGCATGGAGAGCTTCCCCCCTCCCCCCCAGGCTCCCGGCCTTCCCGACCTGCAGACCAAAGAGCAGCAGTCTTCACCCAACACCTTTGCTCCTTATCCTCTTGCTGGATTGAACCCGAACATGAATGTCAACAGCATAGACATGAGCAGTGGCTTGTCTGTGAAGGACCCGTCGCAGTCCCAGTCACGCCTGCCTCAGTGGACACATCCCAACTCCATGGGTAACTTGTCTAGTGCTGCTTCTCCCCTGGACCAGAATCCTAGCAAGCATGGTGCTATCCCTGGAGGTCTAAGCATCGGGCCTCCAGGTAAGTCCTCCATTGATGACTCTTACGGCCGGTACGATTTAATTCAGAACAGTGAGTCACCAGCCAGTCCTCCCGTAGCTGTTCCCCATAGCTGGTCACGTGCCAAATCTGACAGTGATAAAATCTCAAATGGCTCCAGCATCAGCTGGCCCCCAGAATTCCACCCTGGAGTTCCATGGAAAGGACTTCAGAACATTGACCCTGAGAATGACCCTGATGTCACGCCTGGCAGTGTCCCTACAGGACCTACCATCAACACCACCATCCAGGATGTCAACCGCTACCTCCTCAAGAGTGGAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CTGGCAGTGTCCCTACAGGA
60.9
TTCCAGCAGAGCACTCATGG
60.04
147
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CACCACCATCCAGGATGTCA
59.38
TCCACGTTTGTCCATGTCCA
59.53
143
PCR template sequence:
CCTGAGAATGACCCTGATGTCACGCCTGGCAGTGTCCCTACAGGACCTACCATCAACACCACCATCCAGGATGTCAACCGCTACCTCCTCAAGAGTGGAGAGAGAGCCAGCCGAAGAGGCCTTGAAAAGCAACAGTATGAACCTTGACCAGGCCATGAGTGCTCTGCTGGAAAAGAAGGTGGACATGGACAAACGTGGAC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
23
Interacting miRNAs (#binding sites)
mmu-miR-210-3p(1), mmu-let-7a-5p(1), mmu-miR-16-5p(1), mmu-miR-15a-5p(1), mmu-miR-7b-5p(1), mmu-let-7e-5p(1), mmu-let-7b-5p(1), mmu-let-7c-5p(1), mmu-miR-15b-5p(1), mmu-miR-298-5p(1), mmu-miR-7a-5p(1), mmu-miR-320-3p(1), mmu-miR-125b-5p(1), mmu-miR-138-5p(1), mmu-let-7d-5p(1), mmu-miR-351-5p(1), mmu-miR-125a-5p(1), mmu-miR-96-5p(1), mmu-miR-218-5p(1), mmu-miR-98-5p(1), mmu-miR-697(1), mmu-miR-490-3p(1), mmu-miR-181d-5p(1)
siRNAs for circular RNA silencing
Junction sequence
CTCAAGAGTGGAGAGAGAGCCAGCCG
siRNA sets
CTCTCTCTCCACTCTTGAG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCTNRC6C_1462_ORF_1
1.0291
0.281011978
0.999927242
1632
ORF sequence:
ATGGCTCCAGCATCAGCTGGCCCCCAGAATTCCACCCTGGAGTTCCATGGAAAGGACTTCAGAACATTGACCCTGAGAATGACCCTGATGTCACGCCTGGCAGTGTCCCTACAGGACCTACCATCAACACCACCATCCAGGATGTCAACCGCTACCTCCTCAAGAGTGGAGAGAGAGCCAGCCGAAGAGGCCTTGAAAAGCAACAGTATGAACCTTGACCAGGCCATGAGTGCTCTGCTGGAAAAGAAGGTGGACATGGACAAACGTGGACTGGGAATGACCGACTACAATGGAATGGTCACCAAACCCCTCGGCTGCCGCCCACCAATCTCCAAAGAGTCTTCCATGGACCGCCCCACCTTCCTTGACAAGCTCACCCTTTCTTTCTCCAATCAGGATGGCGGCCTCGTGGAAGAGCCCACGACTTCACCGTTTTTGCCTTCCCCAAGCCTGAAGCTCCCCCTTTCCAACAGTGCACTCCCCAGTCAGGCCCTGGGTGGGGTTGCCTCAGGGCTGGGCATGCAAAACTTGAACTCTTCTAGACAGATCCCGAGTGGCAATCTGGGTGTGTTTGGCAATAGCGGAGCAGCACAAGCCAGGACCATGCAGCAGCCGCCAGTGCAGCCTCTTAATTCCTCCCAGCCCAGCCTCCGCGCTCAAGTGCCTCAGTTTCTATCCCCTCAGGTTCAAGCACAGCTTTTGCAGTTTGCAGCAAAAAACATTGGTCTCAGCCCTGCACTATTAACCTCGCCAATTAACCCTCAGCATATGACGATGTTGAACCAGCTCTATCAGCTGCAGCTGGCATACCAACGTTTACAAATCCAGCAGCAGATGTTACAGGCCCAGCGGAATGTTTCCGGACCCATGAGGCAACAGGAGCAGCAAGTTGCGCGCACAATCACTAATCTGCAGCAGCAGATCCAGCAGCACCAGCGCCAGCTGGCCCAGGCCCTGCTTGTAAAGCAGCCACCACCTCCGCCACCCCCGCCGCACCTGTCTCTGCACCCCTCTGCAGGCAAATCGGGCATGGAGAGCTTCCCCCCTCCCCCCCAGGCTCCCGGCCTTCCCGACCTGCAGACCAAAGAGCAGCAGTCTTCACCCAACACCTTTGCTCCTTATCCTCTTGCTGGATTGAACCCGAACATGAATGTCAACAGCATAGACATGAGCAGTGGCTTGTCTGTGAAGGACCCGTCGCAGTCCCAGTCACGCCTGCCTCAGTGGACACATCCCAACTCCATGGGTAACTTGTCTAGTGCTGCTTCTCCCCTGGACCAGAATCCTAGCAAGCATGGTGCTATCCCTGGAGGTCTAAGCATCGGGCCTCCAGGTAAGTCCTCCATTGATGACTCTTACGGCCGGTACGATTTAATTCAGAACAGTGAGTCACCAGCCAGTCCTCCCGTAGCTGTTCCCCATAGCTGGTCACGTGCCAAATCTGACAGTGATAAAATCTCAAATGGCTCCAGCATCAGCTGGCCCCCAGAATTCCACCCTGGAGTTCCATGGAAAGGACTTCAGAACATTGACCCTGAGAATGACCCTGATGTCACGCCTGGCAGTGTCCCTACAGGACCTACCATCAACACCACCATCCAGGATGTCAACCGCTACCTCCTCAAGAGTGGA
Peptide sequence:
MAPASAGPQNSTLEFHGKDFRTLTLRMTLMSRLAVSLQDLPSTPPSRMSTATSSRVEREPAEEALKSNSMNLDQAMSALLEKKVDMDKRGLGMTDYNGMVTKPLGCRPPISKESSMDRPTFLDKLTLSFSNQDGGLVEEPTTSPFLPSPSLKLPLSNSALPSQALGGVASGLGMQNLNSSRQIPSGNLGVFGNSGAAQARTMQQPPVQPLNSSQPSLRAQVPQFLSPQVQAQLLQFAAKNIGLSPALLTSPINPQHMTMLNQLYQLQLAYQRLQIQQQMLQAQRNVSGPMRQQEQQVARTITNLQQQIQQHQRQLAQALLVKQPPPPPPPPHLSLHPSAGKSGMESFPPPPQAPGLPDLQTKEQQSSPNTFAPYPLAGLNPNMNVNSIDMSSGLSVKDPSQSQSRLPQWTHPNSMGNLSSAASPLDQNPSKHGAIPGGLSIGPPGKSSIDDSYGRYDLIQNSESPASPPVAVPHSWSRAKSDSDKISNGSSISWPPEFHPGVPWKGLQNIDPENDPDVTPGSVPTGPTINTTIQDVNRYLLKSG
IRESfinder result
IRESfinder score
0.517588715
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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