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mmu_circRc3h1_1411
Basic information of circular RNA
PanCircBase ID:
mmu_circRc3h1_1411
mm39_Chr. Position ID:
chr1|160782353|160793358|+
Gene name:
Rc3h1
Transcript:
ENSMUST00000161609.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
8
Exon/intron indexes:
12,13,14,15,16,17,18,19
Exon/intron offsets:
0,1031,4617,7487,8695,8924,10166,10889
Genomic length:
11005
Exon/intron sizes in nt:
36,81,65,15,32,14,91,10,00,00,000
Flanking exon/introns:
chr1:160779399-160782353|chr1:160793358-160795216
Splice length:
1411
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTATGTACTATACTCCACCACCATGTGTGTCCCGCTTTGTCCGACCTCCACCATCTGCTCCTGAACCTGGTCCTCCATACTTGGATCATTATTCACCCTACCTCCAAGATCGTGTCATAAACTCTCAGTATGGCACACAGCCACAACAGTACCCACCTATGTACCCAGCTCACTACGATGGCCGCCGTGTATACCCTGCTCAGTCTTACACAAGAGAGGAGATGTTCCGGGAAAGCCCTATACCCATTGACATTCCATCTGCAGCAGTGCCGTCCTATGTACCTGAGTCCAGAGAACGGTACCAACAGGTAGAGGGTTACTACCCGGTGGCTCCTCATCCAGCTCAGATCAGACCTTCATACCCCAGGGATCCTCCTTATAGTCGGCTTCCTCCTCCCCAACCCCATCCTAGTCTGGATGAGCTACATCGAAGGCGGAAGGAAATAATGGCCCAGCTAGAGGAAAGAAAAGTCATCTCTCCACCTCCTTTTGCACCGTCACCAACATTGCCTCCTGCATTCCATCCAGAGGAATTTTTGGATGAAGACTTGAAGGTAGCCGGAAAATACAAAGCAAATGATTATAGCCAGTATTCTCCTTGGTCATGTGATACCATCGGCTCCTACATTGGAACCAAAGATGCAAAACCCAAAGATGTTGTGGCAGCGGGGAGTGTGGAAATGATGAATGTAGAAAGTAAAGGAACGAGAGAGCAGAGGTTGGACCTTCAGAGAAGAGCAGTGGAGACGAGCGATGATGACCTCATCCCGTTTGGAGACCGACCAACAGTCTCTCGATTCGGTGCCATCTCTCGAACATCCAAAACACTGTATCAGGGTGCTGGCCCACTGCAAGCTATAGCACCTCAGGGAGCACCCACAAAATCTATTAACATTTCCGATTACAGTGCATATGGAGCTCATGGTGGCTGGGGAGATTCTCCATACTCACCTCATGCAAACATACCTCCTCAGGGACACTTCATTGAGAGGGAGAAAATGTCCATGGCAGAAGTGGCCAGTCATGGAAAACCCCTTCTATCTGCTGAAAGAGAACAATTACGGCTAGAATTGCAGCAGCTGAACCATCAGATCAGCCAGCAGACCCAGCTACGAGGACTAGAGGCTGTTAGTAACCGGCTGGTGTTACAGAGGGAGGTGAACACCCTGGCAAGCCAGCCACAGCCCCCTCAGCTGCCTCCAAAATGGCCTGGAATGATCTCAAGTGAGCAGCTCAGCTTGGAACTGCATCAGGTGGAAAGAGAAATTGGGAAGAGGACCCGGGAATTGAGTATGGAGAACCAGTGTTCTGTAGACATGAAAAGCAAACTGGGTACAAGCAAGCAAGCAGAAAATGGCCAGCCCGAGCCCCAAAACAAGATCCGCACTGAGGACCTTACATTGACATTCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GGGTACAAGCAAGCAAGCAG
59.76
CCAGGTTCAGGAGCAGATGG
60.11
151
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CTGGGTACAAGCAAGCAAGC
59.76
CCAGGTTCAGGAGCAGATGG
60.11
153
PCR template sequence:
TAGACATGAAAAGCAAACTGGGTACAAGCAAGCAAGCAGAAAATGGCCAGCCCGAGCCCCAAAACAAGATCCGCACTGAGGACCTTACATTGACATTCAGGTATGTACTATACTCCACCACCATGTGTGTCCCGCTTTGTCCGACCTCCACCATCTGCTCCTGAACCTGGTCCTCCATACTTGGATCATTATTCACCCTA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
22
Interacting miRNAs (#binding sites)
mmu-miR-351-5p(2), mmu-miR-670-5p(2), mmu-miR-9-5p(1), mmu-let-7a-5p(1), mmu-miR-1a-3p(1), mmu-miR-429-3p(1), mmu-miR-206-3p(1), mmu-miR-200b-3p(1), mmu-let-7e-5p(1), mmu-miR-135a-5p(1), mmu-miR-200c-3p(1), mmu-miR-125b-5p(1), mmu-miR-185-5p(1), mmu-miR-181b-5p(1), mmu-let-7d-5p(1), mmu-miR-125a-5p(1), mmu-miR-212-3p(1), mmu-miR-183-5p(1), mmu-miR-425-5p(1), mmu-miR-499-5p(1), mmu-miR-202-3p(1), mmu-miR-181d-5p(1)
siRNAs for circular RNA silencing
Junction sequence
CATTGACATTCAGGTATGTACTATAC
siRNA sets
TATAGTACATACCTGAATG, TAGTACATACCTGAATGTC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCRC3H1_1411_ORF_1
0.7955
0.199044523
0.999506615
1473
ORF sequence:
ATGTACTATACTCCACCACCATGTGTGTCCCGCTTTGTCCGACCTCCACCATCTGCTCCTGAACCTGGTCCTCCATACTTGGATCATTATTCACCCTACCTCCAAGATCGTGTCATAAACTCTCAGTATGGCACACAGCCACAACAGTACCCACCTATGTACCCAGCTCACTACGATGGCCGCCGTGTATACCCTGCTCAGTCTTACACAAGAGAGGAGATGTTCCGGGAAAGCCCTATACCCATTGACATTCCATCTGCAGCAGTGCCGTCCTATGTACCTGAGTCCAGAGAACGGTACCAACAGGTAGAGGGTTACTACCCGGTGGCTCCTCATCCAGCTCAGATCAGACCTTCATACCCCAGGGATCCTCCTTATAGTCGGCTTCCTCCTCCCCAACCCCATCCTAGTCTGGATGAGCTACATCGAAGGCGGAAGGAAATAATGGCCCAGCTAGAGGAAAGAAAAGTCATCTCTCCACCTCCTTTTGCACCGTCACCAACATTGCCTCCTGCATTCCATCCAGAGGAATTTTTGGATGAAGACTTGAAGGTAGCCGGAAAATACAAAGCAAATGATTATAGCCAGTATTCTCCTTGGTCATGTGATACCATCGGCTCCTACATTGGAACCAAAGATGCAAAACCCAAAGATGTTGTGGCAGCGGGGAGTGTGGAAATGATGAATGTAGAAAGTAAAGGAACGAGAGAGCAGAGGTTGGACCTTCAGAGAAGAGCAGTGGAGACGAGCGATGATGACCTCATCCCGTTTGGAGACCGACCAACAGTCTCTCGATTCGGTGCCATCTCTCGAACATCCAAAACACTGTATCAGGGTGCTGGCCCACTGCAAGCTATAGCACCTCAGGGAGCACCCACAAAATCTATTAACATTTCCGATTACAGTGCATATGGAGCTCATGGTGGCTGGGGAGATTCTCCATACTCACCTCATGCAAACATACCTCCTCAGGGACACTTCATTGAGAGGGAGAAAATGTCCATGGCAGAAGTGGCCAGTCATGGAAAACCCCTTCTATCTGCTGAAAGAGAACAATTACGGCTAGAATTGCAGCAGCTGAACCATCAGATCAGCCAGCAGACCCAGCTACGAGGACTAGAGGCTGTTAGTAACCGGCTGGTGTTACAGAGGGAGGTGAACACCCTGGCAAGCCAGCCACAGCCCCCTCAGCTGCCTCCAAAATGGCCTGGAATGATCTCAAGTGAGCAGCTCAGCTTGGAACTGCATCAGGTGGAAAGAGAAATTGGGAAGAGGACCCGGGAATTGAGTATGGAGAACCAGTGTTCTGTAGACATGAAAAGCAAACTGGGTACAAGCAAGCAAGCAGAAAATGGCCAGCCCGAGCCCCAAAACAAGATCCGCACTGAGGACCTTACATTGACATTCAGGTATGTACTATACTCCACCACCATGTGTGTCCCGCTTTGTCCGACCTCCACCATCTGCTCCTGA
Peptide sequence:
MYYTPPPCVSRFVRPPPSAPEPGPPYLDHYSPYLQDRVINSQYGTQPQQYPPMYPAHYDGRRVYPAQSYTREEMFRESPIPIDIPSAAVPSYVPESRERYQQVEGYYPVAPHPAQIRPSYPRDPPYSRLPPPQPHPSLDELHRRRKEIMAQLEERKVISPPPFAPSPTLPPAFHPEEFLDEDLKVAGKYKANDYSQYSPWSCDTIGSYIGTKDAKPKDVVAAGSVEMMNVESKGTREQRLDLQRRAVETSDDDLIPFGDRPTVSRFGAISRTSKTLYQGAGPLQAIAPQGAPTKSINISDYSAYGAHGGWGDSPYSPHANIPPQGHFIEREKMSMAEVASHGKPLLSAEREQLRLELQQLNHQISQQTQLRGLEAVSNRLVLQREVNTLASQPQPPQLPPKWPGMISSEQLSLELHQVEREIGKRTRELSMENQCSVDMKSKLGTSKQAENGQPEPQNKIRTEDLTLTFRYVLYSTTMCVPLCPTSTICS
IRESfinder result
IRESfinder score
0.48072741
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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