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mmu_circMtcl1_1896
Basic information of circular RNA
PanCircBase ID:
mmu_circMtcl1_1896
mm39_Chr. Position ID:
chr17|66673338|66687431|-
Gene name:
Mtcl1
Transcript:
ENSMUST00000086693.12
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
8,7,6,5
Exon/intron offsets:
0,1886,11509,12785
Genomic length:
14093
Exon/intron sizes in nt:
19,82,31,15,91,308
Flanking exon/introns:
chr17:66665184-66673338|chr17:66687431-66692854
Splice length:
1896
Other database IDs:
circAtlas: mmu-Mtcl1_0022
circBase: hsa_circ_0046830, circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_24444
Human Ortholog IDs:
Mature spliced Sequence:
GATGACAGTGCGGATTTGAAGTGTCAGCTTCAGTTTGTCAAAGAGGAAGCTTCCCTGATGCGCAAAAAGATGGCCAAGTTGGGGCGGGAGAAGGACGAGTTGGAGCAGGAACTGCAGAAGTATAAGTCCCTCTATGGTGATGTGGACAGTCCCCTCCCAACAGGGGAGGCTGGTGGTCCCCCCAGCACCAGGGAGGCAGAGCTGAAACTGCGGCTGAAGTTGGTGGAGGAGGAAGCCAGCATCTTGGGCAGGAAGATCGTGGAGCTGGAGGTGGAAAACCGTGGCCTCAAAGCAGAGATGGAAGACATACGGGTTCAGCATGAACGCGAGGGAACAGGCAGGGACCACGTGCCAAGCACTCCTACCTCACCCTTCGGAGACTCAATGGAGTCCTCCACGGAGCTCCGCCGGCACCTGCAGTTTGTGGAAGAAGAGGCTGAGCTGCTGAGGAGATCCATCTCTGAGATTGAAGATCACAACCGGCAGTTGACCCACGAGCTGAGCAAGTTCAAGTTTGAGCCTCACCAGGAGTCAGGGTGGCTTGGGGACGGTGTGTCTAAGGGCCCCGCGGCCAGCGTTCCCCTGCAGGAGGAGCTGAAGTCAGCCAGGCTACAGATCGATGAGCTGAGCGGGAAGGTACTGAAGCTGCAGTGTGAGAACCGGCTGCTTCTGTCCAATGCCCAACGGGGTGACCTCGCCGCACATCTGGGGCTGCGCGCTCCTAGCCCCCGGGACAGTGATGCCGAGAGTGACGCGGGCAAGAAAGAGAGCGATGGGGAGGAGGGCCGCCTTCCCCAGCCAAAGCGAGAAGGCCCTGTTGGTGGGGAGAGCGACTCGGAGGACATGTTTGAGAAGACCTCGGGCTTCGGAAGCGGAAAGCCGTCGGAGGCTAGTGAGCCATGCCCGGCAGAGCTGCTAAGGGTCCGGGAGGATACCGAGTGCCTGGTGACCATAAAGCTGGAGGCTCAGCGGCTTGAGCGGACTGTGGAGCGCCTCATCTCTGATACAGATGGTTTCATCCACGACTCAGGACTGCGGGGCAATGGATTGGCCTCACCTGGAGTCCAAGGCGGAGGAGGTGAGGGCAACAGCCCGAGTGAGCCCCACTTGTTGGAGACCATCAATGTGAGGATGAAGGCTTTCAGGAAAGAGCTGCAGGCCTTCCTGGAGCAGATGTCCCGGATTGTGGATGGTCTCTCGCCCTTATCCCACCTCACAGAGTCATCCAGCTTCCTCTCCACTGTGACTTCTGTGTCCCGGGACTCCCCCATCGGGACCCTGGGAAAGGAGTTGGGCCCAGACTTGCAGTCCAAACTGAGAGAGCAGCTGGAATGGCAGCTCAATCAGGATCGAGGGGACGAGCGAGAGGGCCTGCGTCTCCGAGCCACTCGGGAGCTGCACCGGCGCGCGGATGGGGATTCCGGGAGCCACCATGGGCTGGGAGGCCAGAGCTGTTTCAACCTAGAGATGGAGGAGGACCACCTCTACGCCCTGCGGTGGAAGGAACTGGAGATGCACAGCCTGGCCCTGCAGAACACCCTTCACAAGCGGACGTGGAGCGACGAGAAGAATCTGCTGCAGCAGGAGCTCAGGTCCCTGAAGCAGAACATCTTCCTCTTCTACGTCAAGCTCAGGTGGCTGCTGAAACACTGGCGCCAAGGGAAGCAGATGGAGGAGGGAGGAGAGGATCTGGAGGAGAGCGAACATCCAGAGAATGTGCCTGGGCTTGCTGAGCTTGGAGTCCAGGGGGTTCACCAGACAGATGGGATAGACCAGGAGGATGCTGACCAAGGCTGTAGCCTTCCCATGGGAGAGCATGCCCCACACTCCCTGGTACAGATCAGCGAACACGGATCACGGCTACAGAGTTCAGACGGGGGACCACTTAACAAACAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CCTTCCCATGGGAGAGCATG
60.18
TTTTTGCGCATCAGGGAAGC
60.04
165
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CCTTCCCATGGGAGAGCATG
60.18
GGCCATCTTTTTGCGCATCA
60.11
172
PCR template sequence:
TAGCCTTCCCATGGGAGAGCATGCCCCACACTCCCTGGTACAGATCAGCGAACACGGATCACGGCTACAGAGTTCAGACGGGGGACCACTTAACAAACAGGATGACAGTGCGGATTTGAAGTGTCAGCTTCAGTTTGTCAAAGAGGAAGCTTCCCTGATGCGCAAAAAGATGGCCAAGTTGGGGCGGGAGAAGGACGAGT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
17
Interacting miRNAs (#binding sites)
mmu-miR-207(2), mmu-miR-27b-3p(1), mmu-miR-27a-3p(1), mmu-miR-199a-5p(1), mmu-let-7e-5p(1), mmu-let-7b-5p(1), mmu-miR-205-5p(1), mmu-let-7c-5p(1), mmu-miR-328-3p(1), mmu-miR-143-3p(1), mmu-let-7d-5p(1), mmu-miR-22-3p(1), mmu-miR-370-3p(1), mmu-miR-224-5p(1), mmu-miR-129-5p(1), mmu-miR-574-5p(1), mmu-miR-99a-5p(1)
siRNAs for circular RNA silencing
Junction sequence
ACTTAACAAACAGGATGACAGTGCGG
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCMTCL1_1896_ORF_1
1.2392
0.475902527
1
3735
ORF sequence:
ATGCGCAAAAAGATGGCCAAGTTGGGGCGGGAGAAGGACGAGTTGGAGCAGGAACTGCAGAAGTATAAGTCCCTCTATGGTGATGTGGACAGTCCCCTCCCAACAGGGGAGGCTGGTGGTCCCCCCAGCACCAGGGAGGCAGAGCTGAAACTGCGGCTGAAGTTGGTGGAGGAGGAAGCCAGCATCTTGGGCAGGAAGATCGTGGAGCTGGAGGTGGAAAACCGTGGCCTCAAAGCAGAGATGGAAGACATACGGGTTCAGCATGAACGCGAGGGAACAGGCAGGGACCACGTGCCAAGCACTCCTACCTCACCCTTCGGAGACTCAATGGAGTCCTCCACGGAGCTCCGCCGGCACCTGCAGTTTGTGGAAGAAGAGGCTGAGCTGCTGAGGAGATCCATCTCTGAGATTGAAGATCACAACCGGCAGTTGACCCACGAGCTGAGCAAGTTCAAGTTTGAGCCTCACCAGGAGTCAGGGTGGCTTGGGGACGGTGTGTCTAAGGGCCCCGCGGCCAGCGTTCCCCTGCAGGAGGAGCTGAAGTCAGCCAGGCTACAGATCGATGAGCTGAGCGGGAAGGTACTGAAGCTGCAGTGTGAGAACCGGCTGCTTCTGTCCAATGCCCAACGGGGTGACCTCGCCGCACATCTGGGGCTGCGCGCTCCTAGCCCCCGGGACAGTGATGCCGAGAGTGACGCGGGCAAGAAAGAGAGCGATGGGGAGGAGGGCCGCCTTCCCCAGCCAAAGCGAGAAGGCCCTGTTGGTGGGGAGAGCGACTCGGAGGACATGTTTGAGAAGACCTCGGGCTTCGGAAGCGGAAAGCCGTCGGAGGCTAGTGAGCCATGCCCGGCAGAGCTGCTAAGGGTCCGGGAGGATACCGAGTGCCTGGTGACCATAAAGCTGGAGGCTCAGCGGCTTGAGCGGACTGTGGAGCGCCTCATCTCTGATACAGATGGTTTCATCCACGACTCAGGACTGCGGGGCAATGGATTGGCCTCACCTGGAGTCCAAGGCGGAGGAGGTGAGGGCAACAGCCCGAGTGAGCCCCACTTGTTGGAGACCATCAATGTGAGGATGAAGGCTTTCAGGAAAGAGCTGCAGGCCTTCCTGGAGCAGATGTCCCGGATTGTGGATGGTCTCTCGCCCTTATCCCACCTCACAGAGTCATCCAGCTTCCTCTCCACTGTGACTTCTGTGTCCCGGGACTCCCCCATCGGGACCCTGGGAAAGGAGTTGGGCCCAGACTTGCAGTCCAAACTGAGAGAGCAGCTGGAATGGCAGCTCAATCAGGATCGAGGGGACGAGCGAGAGGGCCTGCGTCTCCGAGCCACTCGGGAGCTGCACCGGCGCGCGGATGGGGATTCCGGGAGCCACCATGGGCTGGGAGGCCAGAGCTGTTTCAACCTAGAGATGGAGGAGGACCACCTCTACGCCCTGCGGTGGAAGGAACTGGAGATGCACAGCCTGGCCCTGCAGAACACCCTTCACAAGCGGACGTGGAGCGACGAGAAGAATCTGCTGCAGCAGGAGCTCAGGTCCCTGAAGCAGAACATCTTCCTCTTCTACGTCAAGCTCAGGTGGCTGCTGAAACACTGGCGCCAAGGGAAGCAGATGGAGGAGGGAGGAGAGGATCTGGAGGAGAGCGAACATCCAGAGAATGTGCCTGGGCTTGCTGAGCTTGGAGTCCAGGGGGTTCACCAGACAGATGGGATAGACCAGGAGGATGCTGACCAAGGCTGTAGCCTTCCCATGGGAGAGCATGCCCCACACTCCCTGGTACAGATCAGCGAACACGGATCACGGCTACAGAGTTCAGACGGGGGACCACTTAACAAACAGGATGACAGTGCGGATTTGAAGTGTCAGCTTCAGTTTGTCAAAGAGGAAGCTTCCCTGATGCGCAAAAAGATGGCCAAGTTGGGGCGGGAGAAGGACGAGTTGGAGCAGGAACTGCAGAAGTATAAGTCCCTCTATGGTGATGTGGACAGTCCCCTCCCAACAGGGGAGGCTGGTGGTCCCCCCAGCACCAGGGAGGCAGAGCTGAAACTGCGGCTGAAGTTGGTGGAGGAGGAAGCCAGCATCTTGGGCAGGAAGATCGTGGAGCTGGAGGTGGAAAACCGTGGCCTCAAAGCAGAGATGGAAGACATACGGGTTCAGCATGAACGCGAGGGAACAGGCAGGGACCACGTGCCAAGCACTCCTACCTCACCCTTCGGAGACTCAATGGAGTCCTCCACGGAGCTCCGCCGGCACCTGCAGTTTGTGGAAGAAGAGGCTGAGCTGCTGAGGAGATCCATCTCTGAGATTGAAGATCACAACCGGCAGTTGACCCACGAGCTGAGCAAGTTCAAGTTTGAGCCTCACCAGGAGTCAGGGTGGCTTGGGGACGGTGTGTCTAAGGGCCCCGCGGCCAGCGTTCCCCTGCAGGAGGAGCTGAAGTCAGCCAGGCTACAGATCGATGAGCTGAGCGGGAAGGTACTGAAGCTGCAGTGTGAGAACCGGCTGCTTCTGTCCAATGCCCAACGGGGTGACCTCGCCGCACATCTGGGGCTGCGCGCTCCTAGCCCCCGGGACAGTGATGCCGAGAGTGACGCGGGCAAGAAAGAGAGCGATGGGGAGGAGGGCCGCCTTCCCCAGCCAAAGCGAGAAGGCCCTGTTGGTGGGGAGAGCGACTCGGAGGACATGTTTGAGAAGACCTCGGGCTTCGGAAGCGGAAAGCCGTCGGAGGCTAGTGAGCCATGCCCGGCAGAGCTGCTAAGGGTCCGGGAGGATACCGAGTGCCTGGTGACCATAAAGCTGGAGGCTCAGCGGCTTGAGCGGACTGTGGAGCGCCTCATCTCTGATACAGATGGTTTCATCCACGACTCAGGACTGCGGGGCAATGGATTGGCCTCACCTGGAGTCCAAGGCGGAGGAGGTGAGGGCAACAGCCCGAGTGAGCCCCACTTGTTGGAGACCATCAATGTGAGGATGAAGGCTTTCAGGAAAGAGCTGCAGGCCTTCCTGGAGCAGATGTCCCGGATTGTGGATGGTCTCTCGCCCTTATCCCACCTCACAGAGTCATCCAGCTTCCTCTCCACTGTGACTTCTGTGTCCCGGGACTCCCCCATCGGGACCCTGGGAAAGGAGTTGGGCCCAGACTTGCAGTCCAAACTGAGAGAGCAGCTGGAATGGCAGCTCAATCAGGATCGAGGGGACGAGCGAGAGGGCCTGCGTCTCCGAGCCACTCGGGAGCTGCACCGGCGCGCGGATGGGGATTCCGGGAGCCACCATGGGCTGGGAGGCCAGAGCTGTTTCAACCTAGAGATGGAGGAGGACCACCTCTACGCCCTGCGGTGGAAGGAACTGGAGATGCACAGCCTGGCCCTGCAGAACACCCTTCACAAGCGGACGTGGAGCGACGAGAAGAATCTGCTGCAGCAGGAGCTCAGGTCCCTGAAGCAGAACATCTTCCTCTTCTACGTCAAGCTCAGGTGGCTGCTGAAACACTGGCGCCAAGGGAAGCAGATGGAGGAGGGAGGAGAGGATCTGGAGGAGAGCGAACATCCAGAGAATGTGCCTGGGCTTGCTGAGCTTGGAGTCCAGGGGGTTCACCAGACAGATGGGATAGACCAGGAGGATGCTGACCAAGGCTGTAGCCTTCCCATGGGAGAGCATGCCCCACACTCCCTGGTACAGATCAGCGAACACGGATCACGGCTACAGAGTTCAGACGGGGGACCACTTAACAAACAG
Peptide sequence:
MRKKMAKLGREKDELEQELQKYKSLYGDVDSPLPTGEAGGPPSTREAELKLRLKLVEEEASILGRKIVELEVENRGLKAEMEDIRVQHEREGTGRDHVPSTPTSPFGDSMESSTELRRHLQFVEEEAELLRRSISEIEDHNRQLTHELSKFKFEPHQESGWLGDGVSKGPAASVPLQEELKSARLQIDELSGKVLKLQCENRLLLSNAQRGDLAAHLGLRAPSPRDSDAESDAGKKESDGEEGRLPQPKREGPVGGESDSEDMFEKTSGFGSGKPSEASEPCPAELLRVREDTECLVTIKLEAQRLERTVERLISDTDGFIHDSGLRGNGLASPGVQGGGGEGNSPSEPHLLETINVRMKAFRKELQAFLEQMSRIVDGLSPLSHLTESSSFLSTVTSVSRDSPIGTLGKELGPDLQSKLREQLEWQLNQDRGDEREGLRLRATRELHRRADGDSGSHHGLGGQSCFNLEMEEDHLYALRWKELEMHSLALQNTLHKRTWSDEKNLLQQELRSLKQNIFLFYVKLRWLLKHWRQGKQMEEGGEDLEESEHPENVPGLAELGVQGVHQTDGIDQEDADQGCSLPMGEHAPHSLVQISEHGSRLQSSDGGPLNKQDDSADLKCQLQFVKEEASLMRKKMAKLGREKDELEQELQKYKSLYGDVDSPLPTGEAGGPPSTREAELKLRLKLVEEEASILGRKIVELEVENRGLKAEMEDIRVQHEREGTGRDHVPSTPTSPFGDSMESSTELRRHLQFVEEEAELLRRSISEIEDHNRQLTHELSKFKFEPHQESGWLGDGVSKGPAASVPLQEELKSARLQIDELSGKVLKLQCENRLLLSNAQRGDLAAHLGLRAPSPRDSDAESDAGKKESDGEEGRLPQPKREGPVGGESDSEDMFEKTSGFGSGKPSEASEPCPAELLRVREDTECLVTIKLEAQRLERTVERLISDTDGFIHDSGLRGNGLASPGVQGGGGEGNSPSEPHLLETINVRMKAFRKELQAFLEQMSRIVDGLSPLSHLTESSSFLSTVTSVSRDSPIGTLGKELGPDLQSKLREQLEWQLNQDRGDEREGLRLRATRELHRRADGDSGSHHGLGGQSCFNLEMEEDHLYALRWKELEMHSLALQNTLHKRTWSDEKNLLQQELRSLKQNIFLFYVKLRWLLKHWRQGKQMEEGGEDLEESEHPENVPGLAELGVQGVHQTDGIDQEDADQGCSLPMGEHAPHSLVQISEHGSRLQSSDGGPLNKQ
IRESfinder result
IRESfinder score
0.246674958
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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