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mmu_circTrim37_1489
Basic information of circular RNA
PanCircBase ID:
mmu_circTrim37_1489
mm39_Chr. Position ID:
chr11|87075709|87107373|+
Gene name:
Trim37
Transcript:
ENSMUST00000041282.13
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
9
Exon/intron indexes:
15,16,17,18,19,20,21,22,23
Exon/intron offsets:
0,1495,5190,11937,16434,21049,21880,24885,31553
Genomic length:
31664
Exon/intron sizes in nt:
2,19,13,78,61,95,30,91,00,00,00,00,000
Flanking exon/introns:
chr11:87073361-87075709|chr11:87107373-87109077
Splice length:
1489
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
AGACTGACTATTGAGCTGTCCCGAACTCAGAAATCCAGAGATCTGTCACCACCAGATAATCATCTTAGCCCTCAAAATGATGATTCTCCTGAGACACGAACTAAGAAAGCTGGGTCATGCTCTGACATGCTTCTGGAAGGCGGTCCTACTTGCGCTTCTGTACGAGAGACCAAGGAAGATGAAGATGAGGAGGAGAAGATTCAGAATGAAGACTATCATCATGAGCTCTCGGATGGAGATCTGGACCTGGATCTTGTTGGAGAAGATGAAGTGAATCACCTTGATGGCAGCAGCTCTTCTGCTAGTTCTACAGCAACAAGCAACACAGAAGAAAACGATATTGATGAGGAGACCATGTCTGGGGAAAATGATGTAGAATATAACAGTATGGAGCTGGAAGAGGGAGAGCTCATGGAAGATGCAGCTGCTGCAGGTCCTCCAGGTAGTAGCCACAGCTATGTGGGTGCCAGTAGCAGAATGTCAAGAAGAACACATTTATGCTCTGCAGCTACCAGTAGCTTACTAGACATTGATCCTTTAATCTTAATACATTTATTGGATCTTAAGGACCGGAGCAGTATGGAAAACCTGTGGGGTTTACAGCCTCGCCCGTCTGCTTCACTGTTGCAGCCCACAGCATCATATTCTCGAAAAGATAAAGATCAAAGGAAGCAGCAAGCGATGTGGCGTGTGCCCTCTGACCTAAAGATGCTGAAAAGGCTCAAAACACAGATGGCTGAAGTCCGGTGTATGAAGACTGATGTGAAGACTACGCTGTCAGATATAAAGGGCAGCAGTGTTGCTTCCACAGACATGCAGACAAACCTATTCTGTGCTGACCAGGCAGCTCTGACTACCTGTGGACCCGAAAACTCTGGTAGATTACAGGATTTGGGAATGGAGCTTCTAGCAAAGTCATCAGTGGCTGGCTGTTACATACGAAACCCCACAAATAAGAAGAATTCCCCCAAGTCAGCTCGGGCCATAGCAGGCAGTCTGTCACTCCGAAGAGCTGTGGACTCTGGAGAAAATAGCCGTTCAAAGGGAGACTGTCAGGTTCTGGCTGAAGGCTCCTCGGGAAGCTCTCAGTCTGGGAGCAGACACAGCTCCCCCCGGGCTCTGACACACGGCATCATTGGGGATCTTCTGCCCAAAAGTGAAGACCGACAGTGCAAAGCCTTGGATTCTGACGCTGTGGTTGTTGCAGTTTTCAATGGTTTACCTACTGTTGAGAAGAGAAGGAAAATGGTCACCTTGGGGACTAATGCAAAAGGAGGTCGTCTGGAAGGAATGCAGATGGCAGATTTGGAAAGTCATTCTGAAGCTGGGGAGGTACAGCCCACACTACCTGAAGGAGCCTCAGCCGCCCCTGAGGAAGGAATGAGTAGTGACAGCGACATTGAATGTGACACTGAGAACGAGGAGCAGGAAGAACACACCAGCATGGGCGCGTTCAACGATCCGTTCCTGGCTCAGCCCCCCGATGAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GGAGCAGGAAGAACACACCA
59.89
TCGTGTCTCAGGAGAATCATCA
58.64
167
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CACTGAGAACGAGGAGCAGG
60.11
TCGTGTCTCAGGAGAATCATCA
58.64
179
PCR template sequence:
GACAGCGACATTGAATGTGACACTGAGAACGAGGAGCAGGAAGAACACACCAGCATGGGCGCGTTCAACGATCCGTTCCTGGCTCAGCCCCCCGATGAAGAGACTGACTATTGAGCTGTCCCGAACTCAGAAATCCAGAGATCTGTCACCACCAGATAATCATCTTAGCCCTCAAAATGATGATTCTCCTGAGACACGAA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
13
Interacting miRNAs (#binding sites)
mmu-miR-181a-5p(1), mmu-miR-221-3p(1), mmu-miR-204-5p(1), mmu-miR-138-5p(1), mmu-miR-181b-5p(1), mmu-miR-433-3p(1), mmu-miR-411-3p(1), mmu-miR-194-5p(1), mmu-miR-1198-5p(1), mmu-miR-207(1), mmu-miR-335-3p(1), mmu-miR-540-3p(1), mmu-miR-181d-5p(1)
siRNAs for circular RNA silencing
Junction sequence
CCCCCCGATGAAGAGACTGACTATTG
siRNA sets
TAGTCAGTCTCTTCATCGG, TCAGTCTCTTCATCGGGGG, ATAGTCAGTCTCTTCATCG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCTRIM37_1489_ORF_1
1.0003
0.234497108
0.999748407
1494
ORF sequence:
ATGAAGAGACTGACTATTGAGCTGTCCCGAACTCAGAAATCCAGAGATCTGTCACCACCAGATAATCATCTTAGCCCTCAAAATGATGATTCTCCTGAGACACGAACTAAGAAAGCTGGGTCATGCTCTGACATGCTTCTGGAAGGCGGTCCTACTTGCGCTTCTGTACGAGAGACCAAGGAAGATGAAGATGAGGAGGAGAAGATTCAGAATGAAGACTATCATCATGAGCTCTCGGATGGAGATCTGGACCTGGATCTTGTTGGAGAAGATGAAGTGAATCACCTTGATGGCAGCAGCTCTTCTGCTAGTTCTACAGCAACAAGCAACACAGAAGAAAACGATATTGATGAGGAGACCATGTCTGGGGAAAATGATGTAGAATATAACAGTATGGAGCTGGAAGAGGGAGAGCTCATGGAAGATGCAGCTGCTGCAGGTCCTCCAGGTAGTAGCCACAGCTATGTGGGTGCCAGTAGCAGAATGTCAAGAAGAACACATTTATGCTCTGCAGCTACCAGTAGCTTACTAGACATTGATCCTTTAATCTTAATACATTTATTGGATCTTAAGGACCGGAGCAGTATGGAAAACCTGTGGGGTTTACAGCCTCGCCCGTCTGCTTCACTGTTGCAGCCCACAGCATCATATTCTCGAAAAGATAAAGATCAAAGGAAGCAGCAAGCGATGTGGCGTGTGCCCTCTGACCTAAAGATGCTGAAAAGGCTCAAAACACAGATGGCTGAAGTCCGGTGTATGAAGACTGATGTGAAGACTACGCTGTCAGATATAAAGGGCAGCAGTGTTGCTTCCACAGACATGCAGACAAACCTATTCTGTGCTGACCAGGCAGCTCTGACTACCTGTGGACCCGAAAACTCTGGTAGATTACAGGATTTGGGAATGGAGCTTCTAGCAAAGTCATCAGTGGCTGGCTGTTACATACGAAACCCCACAAATAAGAAGAATTCCCCCAAGTCAGCTCGGGCCATAGCAGGCAGTCTGTCACTCCGAAGAGCTGTGGACTCTGGAGAAAATAGCCGTTCAAAGGGAGACTGTCAGGTTCTGGCTGAAGGCTCCTCGGGAAGCTCTCAGTCTGGGAGCAGACACAGCTCCCCCCGGGCTCTGACACACGGCATCATTGGGGATCTTCTGCCCAAAAGTGAAGACCGACAGTGCAAAGCCTTGGATTCTGACGCTGTGGTTGTTGCAGTTTTCAATGGTTTACCTACTGTTGAGAAGAGAAGGAAAATGGTCACCTTGGGGACTAATGCAAAAGGAGGTCGTCTGGAAGGAATGCAGATGGCAGATTTGGAAAGTCATTCTGAAGCTGGGGAGGTACAGCCCACACTACCTGAAGGAGCCTCAGCCGCCCCTGAGGAAGGAATGAGTAGTGACAGCGACATTGAATGTGACACTGAGAACGAGGAGCAGGAAGAACACACCAGCATGGGCGCGTTCAACGATCCGTTCCTGGCTCAGCCCCCCGATGAA
Peptide sequence:
MKRLTIELSRTQKSRDLSPPDNHLSPQNDDSPETRTKKAGSCSDMLLEGGPTCASVRETKEDEDEEEKIQNEDYHHELSDGDLDLDLVGEDEVNHLDGSSSSASSTATSNTEENDIDEETMSGENDVEYNSMELEEGELMEDAAAAGPPGSSHSYVGASSRMSRRTHLCSAATSSLLDIDPLILIHLLDLKDRSSMENLWGLQPRPSASLLQPTASYSRKDKDQRKQQAMWRVPSDLKMLKRLKTQMAEVRCMKTDVKTTLSDIKGSSVASTDMQTNLFCADQAALTTCGPENSGRLQDLGMELLAKSSVAGCYIRNPTNKKNSPKSARAIAGSLSLRRAVDSGENSRSKGDCQVLAEGSSGSSQSGSRHSSPRALTHGIIGDLLPKSEDRQCKALDSDAVVVAVFNGLPTVEKRRKMVTLGTNAKGGRLEGMQMADLESHSEAGEVQPTLPEGASAAPEEGMSSDSDIECDTENEEQEEHTSMGAFNDPFLAQPPDE
IRESfinder result
IRESfinder score
0.486431056
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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