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mmu_circMtcl1_1308
Basic information of circular RNA
PanCircBase ID:
mmu_circMtcl1_1308
mm39_Chr. Position ID:
chr17|66686123|66687431|-
Gene name:
Mtcl1
Transcript:
ENSMUST00000086693.12
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
1
Exon/intron indexes:
5
Exon/intron offsets:
0
Genomic length:
1308
Exon/intron sizes in nt:
1308
Flanking exon/introns:
chr17:66685006-66686123|chr17:66687431-66692854
Splice length:
1308
Other database IDs:
CIRCpedia: MMU_CIRCpedia_219430, circAtlas: mmu-Mtcl1_0002
circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_88186
Human Ortholog IDs:
Mature spliced Sequence:
GATGACAGTGCGGATTTGAAGTGTCAGCTTCAGTTTGTCAAAGAGGAAGCTTCCCTGATGCGCAAAAAGATGGCCAAGTTGGGGCGGGAGAAGGACGAGTTGGAGCAGGAACTGCAGAAGTATAAGTCCCTCTATGGTGATGTGGACAGTCCCCTCCCAACAGGGGAGGCTGGTGGTCCCCCCAGCACCAGGGAGGCAGAGCTGAAACTGCGGCTGAAGTTGGTGGAGGAGGAAGCCAGCATCTTGGGCAGGAAGATCGTGGAGCTGGAGGTGGAAAACCGTGGCCTCAAAGCAGAGATGGAAGACATACGGGTTCAGCATGAACGCGAGGGAACAGGCAGGGACCACGTGCCAAGCACTCCTACCTCACCCTTCGGAGACTCAATGGAGTCCTCCACGGAGCTCCGCCGGCACCTGCAGTTTGTGGAAGAAGAGGCTGAGCTGCTGAGGAGATCCATCTCTGAGATTGAAGATCACAACCGGCAGTTGACCCACGAGCTGAGCAAGTTCAAGTTTGAGCCTCACCAGGAGTCAGGGTGGCTTGGGGACGGTGTGTCTAAGGGCCCCGCGGCCAGCGTTCCCCTGCAGGAGGAGCTGAAGTCAGCCAGGCTACAGATCGATGAGCTGAGCGGGAAGGTACTGAAGCTGCAGTGTGAGAACCGGCTGCTTCTGTCCAATGCCCAACGGGGTGACCTCGCCGCACATCTGGGGCTGCGCGCTCCTAGCCCCCGGGACAGTGATGCCGAGAGTGACGCGGGCAAGAAAGAGAGCGATGGGGAGGAGGGCCGCCTTCCCCAGCCAAAGCGAGAAGGCCCTGTTGGTGGGGAGAGCGACTCGGAGGACATGTTTGAGAAGACCTCGGGCTTCGGAAGCGGAAAGCCGTCGGAGGCTAGTGAGCCATGCCCGGCAGAGCTGCTAAGGGTCCGGGAGGATACCGAGTGCCTGGTGACCATAAAGCTGGAGGCTCAGCGGCTTGAGCGGACTGTGGAGCGCCTCATCTCTGATACAGATGGTTTCATCCACGACTCAGGACTGCGGGGCAATGGATTGGCCTCACCTGGAGTCCAAGGCGGAGGAGGTGAGGGCAACAGCCCGAGTGAGCCCCACTTGTTGGAGACCATCAATGTGAGGATGAAGGCTTTCAGGAAAGAGCTGCAGGCCTTCCTGGAGCAGATGTCCCGGATTGTGGATGGTCTCTCGCCCTTATCCCACCTCACAGAGTCATCCAGCTTCCTCTCCACTGTGACTTCTGTGTCCCGGGACTCCCCCATCGGGACCCTGGGAAAGGAGTTGGGCCCAGACTTGCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CCAGCTTCCTCTCCACTGTG
60.04
TTTTTGCGCATCAGGGAAGC
60.04
151
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CCAGCTTCCTCTCCACTGTG
60.04
GGCCATCTTTTTGCGCATCA
60.11
158
PCR template sequence:
CCACCTCACAGAGTCATCCAGCTTCCTCTCCACTGTGACTTCTGTGTCCCGGGACTCCCCCATCGGGACCCTGGGAAAGGAGTTGGGCCCAGACTTGCAGGATGACAGTGCGGATTTGAAGTGTCAGCTTCAGTTTGTCAAAGAGGAAGCTTCCCTGATGCGCAAAAAGATGGCCAAGTTGGGGCGGGAGAAGGACGAGT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
12
Interacting miRNAs (#binding sites)
mmu-miR-27b-3p(1), mmu-miR-27a-3p(1), mmu-let-7e-5p(1), mmu-let-7b-5p(1), mmu-miR-205-5p(1), mmu-let-7c-5p(1), mmu-miR-143-3p(1), mmu-let-7d-5p(1), mmu-miR-224-5p(1), mmu-miR-129-5p(1), mmu-miR-207(1), mmu-miR-99a-5p(1)
siRNAs for circular RNA silencing
Junction sequence
CCCAGACTTGCAGGATGACAGTGCGG
siRNA sets
TGTCATCCTGCAAGTCTGG, GTCATCCTGCAAGTCTGGG, ACTGTCATCCTGCAAGTCT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCMTCL1_1308_ORF_1
1.2364
0.484915364
0.999999973
2559
ORF sequence:
ATGCGCAAAAAGATGGCCAAGTTGGGGCGGGAGAAGGACGAGTTGGAGCAGGAACTGCAGAAGTATAAGTCCCTCTATGGTGATGTGGACAGTCCCCTCCCAACAGGGGAGGCTGGTGGTCCCCCCAGCACCAGGGAGGCAGAGCTGAAACTGCGGCTGAAGTTGGTGGAGGAGGAAGCCAGCATCTTGGGCAGGAAGATCGTGGAGCTGGAGGTGGAAAACCGTGGCCTCAAAGCAGAGATGGAAGACATACGGGTTCAGCATGAACGCGAGGGAACAGGCAGGGACCACGTGCCAAGCACTCCTACCTCACCCTTCGGAGACTCAATGGAGTCCTCCACGGAGCTCCGCCGGCACCTGCAGTTTGTGGAAGAAGAGGCTGAGCTGCTGAGGAGATCCATCTCTGAGATTGAAGATCACAACCGGCAGTTGACCCACGAGCTGAGCAAGTTCAAGTTTGAGCCTCACCAGGAGTCAGGGTGGCTTGGGGACGGTGTGTCTAAGGGCCCCGCGGCCAGCGTTCCCCTGCAGGAGGAGCTGAAGTCAGCCAGGCTACAGATCGATGAGCTGAGCGGGAAGGTACTGAAGCTGCAGTGTGAGAACCGGCTGCTTCTGTCCAATGCCCAACGGGGTGACCTCGCCGCACATCTGGGGCTGCGCGCTCCTAGCCCCCGGGACAGTGATGCCGAGAGTGACGCGGGCAAGAAAGAGAGCGATGGGGAGGAGGGCCGCCTTCCCCAGCCAAAGCGAGAAGGCCCTGTTGGTGGGGAGAGCGACTCGGAGGACATGTTTGAGAAGACCTCGGGCTTCGGAAGCGGAAAGCCGTCGGAGGCTAGTGAGCCATGCCCGGCAGAGCTGCTAAGGGTCCGGGAGGATACCGAGTGCCTGGTGACCATAAAGCTGGAGGCTCAGCGGCTTGAGCGGACTGTGGAGCGCCTCATCTCTGATACAGATGGTTTCATCCACGACTCAGGACTGCGGGGCAATGGATTGGCCTCACCTGGAGTCCAAGGCGGAGGAGGTGAGGGCAACAGCCCGAGTGAGCCCCACTTGTTGGAGACCATCAATGTGAGGATGAAGGCTTTCAGGAAAGAGCTGCAGGCCTTCCTGGAGCAGATGTCCCGGATTGTGGATGGTCTCTCGCCCTTATCCCACCTCACAGAGTCATCCAGCTTCCTCTCCACTGTGACTTCTGTGTCCCGGGACTCCCCCATCGGGACCCTGGGAAAGGAGTTGGGCCCAGACTTGCAGGATGACAGTGCGGATTTGAAGTGTCAGCTTCAGTTTGTCAAAGAGGAAGCTTCCCTGATGCGCAAAAAGATGGCCAAGTTGGGGCGGGAGAAGGACGAGTTGGAGCAGGAACTGCAGAAGTATAAGTCCCTCTATGGTGATGTGGACAGTCCCCTCCCAACAGGGGAGGCTGGTGGTCCCCCCAGCACCAGGGAGGCAGAGCTGAAACTGCGGCTGAAGTTGGTGGAGGAGGAAGCCAGCATCTTGGGCAGGAAGATCGTGGAGCTGGAGGTGGAAAACCGTGGCCTCAAAGCAGAGATGGAAGACATACGGGTTCAGCATGAACGCGAGGGAACAGGCAGGGACCACGTGCCAAGCACTCCTACCTCACCCTTCGGAGACTCAATGGAGTCCTCCACGGAGCTCCGCCGGCACCTGCAGTTTGTGGAAGAAGAGGCTGAGCTGCTGAGGAGATCCATCTCTGAGATTGAAGATCACAACCGGCAGTTGACCCACGAGCTGAGCAAGTTCAAGTTTGAGCCTCACCAGGAGTCAGGGTGGCTTGGGGACGGTGTGTCTAAGGGCCCCGCGGCCAGCGTTCCCCTGCAGGAGGAGCTGAAGTCAGCCAGGCTACAGATCGATGAGCTGAGCGGGAAGGTACTGAAGCTGCAGTGTGAGAACCGGCTGCTTCTGTCCAATGCCCAACGGGGTGACCTCGCCGCACATCTGGGGCTGCGCGCTCCTAGCCCCCGGGACAGTGATGCCGAGAGTGACGCGGGCAAGAAAGAGAGCGATGGGGAGGAGGGCCGCCTTCCCCAGCCAAAGCGAGAAGGCCCTGTTGGTGGGGAGAGCGACTCGGAGGACATGTTTGAGAAGACCTCGGGCTTCGGAAGCGGAAAGCCGTCGGAGGCTAGTGAGCCATGCCCGGCAGAGCTGCTAAGGGTCCGGGAGGATACCGAGTGCCTGGTGACCATAAAGCTGGAGGCTCAGCGGCTTGAGCGGACTGTGGAGCGCCTCATCTCTGATACAGATGGTTTCATCCACGACTCAGGACTGCGGGGCAATGGATTGGCCTCACCTGGAGTCCAAGGCGGAGGAGGTGAGGGCAACAGCCCGAGTGAGCCCCACTTGTTGGAGACCATCAATGTGAGGATGAAGGCTTTCAGGAAAGAGCTGCAGGCCTTCCTGGAGCAGATGTCCCGGATTGTGGATGGTCTCTCGCCCTTATCCCACCTCACAGAGTCATCCAGCTTCCTCTCCACTGTGACTTCTGTGTCCCGGGACTCCCCCATCGGGACCCTGGGAAAGGAGTTGGGCCCAGACTTGCAG
Peptide sequence:
MRKKMAKLGREKDELEQELQKYKSLYGDVDSPLPTGEAGGPPSTREAELKLRLKLVEEEASILGRKIVELEVENRGLKAEMEDIRVQHEREGTGRDHVPSTPTSPFGDSMESSTELRRHLQFVEEEAELLRRSISEIEDHNRQLTHELSKFKFEPHQESGWLGDGVSKGPAASVPLQEELKSARLQIDELSGKVLKLQCENRLLLSNAQRGDLAAHLGLRAPSPRDSDAESDAGKKESDGEEGRLPQPKREGPVGGESDSEDMFEKTSGFGSGKPSEASEPCPAELLRVREDTECLVTIKLEAQRLERTVERLISDTDGFIHDSGLRGNGLASPGVQGGGGEGNSPSEPHLLETINVRMKAFRKELQAFLEQMSRIVDGLSPLSHLTESSSFLSTVTSVSRDSPIGTLGKELGPDLQDDSADLKCQLQFVKEEASLMRKKMAKLGREKDELEQELQKYKSLYGDVDSPLPTGEAGGPPSTREAELKLRLKLVEEEASILGRKIVELEVENRGLKAEMEDIRVQHEREGTGRDHVPSTPTSPFGDSMESSTELRRHLQFVEEEAELLRRSISEIEDHNRQLTHELSKFKFEPHQESGWLGDGVSKGPAASVPLQEELKSARLQIDELSGKVLKLQCENRLLLSNAQRGDLAAHLGLRAPSPRDSDAESDAGKKESDGEEGRLPQPKREGPVGGESDSEDMFEKTSGFGSGKPSEASEPCPAELLRVREDTECLVTIKLEAQRLERTVERLISDTDGFIHDSGLRGNGLASPGVQGGGGEGNSPSEPHLLETINVRMKAFRKELQAFLEQMSRIVDGLSPLSHLTESSSFLSTVTSVSRDSPIGTLGKELGPDLQ
IRESfinder result
IRESfinder score
0.238672998
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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