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mmu_circMarf1_1494
Basic information of circular RNA
PanCircBase ID:
mmu_circMarf1_1494
mm39_Chr. Position ID:
chr16|13944919|13956385|-
Gene name:
Marf1
Transcript:
ENSMUST00000090300.6
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
9
Exon/intron indexes:
20,19,18,17,16,15,14,13,12
Exon/intron offsets:
0,1455,1695,2590,4391,5304,5514,9882,11287
Genomic length:
11466
Exon/intron sizes in nt:
2,03,13,41,43,22,11,76,00,00,00,00,000
Flanking exon/introns:
chr16:13944033-13944919|chr16:13956385-13958046
Splice length:
1494
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTGAAGAGTGTTGAGCTCAGTCCCCATACTGATTACCAGCTCAAGGCCATTGTGCAGATGAGAAACCTGCACGAAGCAATCTGTGCAGTGAACAGCCTCCATAGGCACAAAATTGGCAGCAAGAAGATACTGGTCTCACTCTCCACAGGAGCTGCCAACAAGTCACTCTCTTTACTAAGCACAGAAACAATGTCTATTCTTCAGGATGCTCCTGCCTGTTGCTTGCCTCTCTTTAAATTTATAGACATCTATGAAAAGAAGTATGGACACAAGTTAAATGTGTCTGATTTATATAAATTAACAGACACTATTGCAATCCGTGAACAGGGAAACGGGCGATTGGTGTGTCTCTTACCTAGTAATCAGGCCCGCCAGAGCCCCCTGGGCTCTTCCCAGTCACATGATGGCTCCTCCTCAAACTGCAGCCCAGTTCTGTTTGAAGAGTTGGAGTATCACGAACCTGTCTGCAAGCAGCACTGCTCTAACAAGGACTTCAGTGAACTTGTGTTTGATCCAGACTCTTACAAGATTCCTTTTGTGGTTCTCTCTTTGAAAGTGTTCGCACCTCAAGTTCATAGTCTTCTGCAGACCCACCAGGGCACTGTGCCTTTGCTAAGCTTTCCAGATTGCTATGCTGCGGAGTTTGGTGACCTAGAAATTACGCAAGACAGCCACAAGGGTGTCCCCTTAGAGCACTTCATCACCTGCATTCCAGGAGTGAACATTGCCACTGCTCAGAATGGCGTCAAAGTAGTGAAGTGGATTCACAACAAGCCCCCACCTCCCAACACTGACCCTTGGCTTCTTCGTTCTAAAAGTCCTGTGAGAAATCCCCAGCTGATTCAGTTCAGCAGAGAGGTCATTGATTTACTGAAGACCCAGCCATCGTGTATACTACCCGTCAGCAATTTCATCCCTTCATACCATCACCACTTTGGAAAGCAGTGCAGGGTTTCAGACTATGGTTATTCCAAGCTGATTGAACTCCTAGAAGCTGTGCCTCATGTGTTGCAGATTCTTGGTATGGGCTCCAAGCGTCTGATGACCCTTACTCACAGGGCCCAGGTGAAGCGCTTTACTCAGGATTTACTAAAACTTCTTAAGTCCCAGGCCAGCAAGCAGGTCATCGTGAGAGACTTTTCACAGGCTTATCATTGGTGTTTCTCAAAGGACTGGGATGTCACGGAATATGGTGTTTGTGACTTGATTGATATAATATCAGAGATCCCAGACACAACTATTTGCTTGTCCCAACAAGATGACGACATGGTCATTTGTATCCGAAAAAGAGAACGAACTCAGGATGAAATAGAAAGGACAAAGCAGTTCTCCAAAGATGTTGTGGACTTGCTGCGCCACCAGCCCCATTTCAGAATGCCCTTCAACAAGTTCATTCCCTCTTACCACCACCACTTTGGCCGACAGTGTAAACTTGCATACTATGGATTTACCAAGCTGCTTGAACTTTTGGAAGCCATACCTGAGATTTTACAA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GGCCGACAGTGTAAACTTGC
59.76
GAGGCTGTTCACTGCACAGA
60.25
177
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GGCCGACAGTGTAAACTTGC
59.76
AGGCTGTTCACTGCACAGAT
59.6
176
PCR template sequence:
TCCCTCTTACCACCACCACTTTGGCCGACAGTGTAAACTTGCATACTATGGATTTACCAAGCTGCTTGAACTTTTGGAAGCCATACCTGAGATTTTACAAGTGAAGAGTGTTGAGCTCAGTCCCCATACTGATTACCAGCTCAAGGCCATTGTGCAGATGAGAAACCTGCACGAAGCAATCTGTGCAGTGAACAGCCTCC
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-134-5p(1), mmu-miR-141-3p(1), mmu-miR-216a-5p(1), mmu-miR-7a-5p(1), mmu-miR-138-5p(1), mmu-miR-128-3p(1), mmu-miR-676-3p(1), mmu-miR-224-5p(1), mmu-miR-705(1), mmu-miR-300-3p(1), mmu-miR-350-3p(1), mmu-miR-697(1), mmu-miR-544-5p(1)
siRNAs for circular RNA silencing
Junction sequence
TGAGATTTTACAAGTGAAGAGTGTTG
siRNA sets
TCTTCACTTGTAAAATCTC, ACTCTTCACTTGTAAAATC, CTTCACTTGTAAAATCTCA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCMARF1_1494_ORF_1
0.9182
0.151177662
0.999999987
2931
ORF sequence:
ATGAGAAACCTGCACGAAGCAATCTGTGCAGTGAACAGCCTCCATAGGCACAAAATTGGCAGCAAGAAGATACTGGTCTCACTCTCCACAGGAGCTGCCAACAAGTCACTCTCTTTACTAAGCACAGAAACAATGTCTATTCTTCAGGATGCTCCTGCCTGTTGCTTGCCTCTCTTTAAATTTATAGACATCTATGAAAAGAAGTATGGACACAAGTTAAATGTGTCTGATTTATATAAATTAACAGACACTATTGCAATCCGTGAACAGGGAAACGGGCGATTGGTGTGTCTCTTACCTAGTAATCAGGCCCGCCAGAGCCCCCTGGGCTCTTCCCAGTCACATGATGGCTCCTCCTCAAACTGCAGCCCAGTTCTGTTTGAAGAGTTGGAGTATCACGAACCTGTCTGCAAGCAGCACTGCTCTAACAAGGACTTCAGTGAACTTGTGTTTGATCCAGACTCTTACAAGATTCCTTTTGTGGTTCTCTCTTTGAAAGTGTTCGCACCTCAAGTTCATAGTCTTCTGCAGACCCACCAGGGCACTGTGCCTTTGCTAAGCTTTCCAGATTGCTATGCTGCGGAGTTTGGTGACCTAGAAATTACGCAAGACAGCCACAAGGGTGTCCCCTTAGAGCACTTCATCACCTGCATTCCAGGAGTGAACATTGCCACTGCTCAGAATGGCGTCAAAGTAGTGAAGTGGATTCACAACAAGCCCCCACCTCCCAACACTGACCCTTGGCTTCTTCGTTCTAAAAGTCCTGTGAGAAATCCCCAGCTGATTCAGTTCAGCAGAGAGGTCATTGATTTACTGAAGACCCAGCCATCGTGTATACTACCCGTCAGCAATTTCATCCCTTCATACCATCACCACTTTGGAAAGCAGTGCAGGGTTTCAGACTATGGTTATTCCAAGCTGATTGAACTCCTAGAAGCTGTGCCTCATGTGTTGCAGATTCTTGGTATGGGCTCCAAGCGTCTGATGACCCTTACTCACAGGGCCCAGGTGAAGCGCTTTACTCAGGATTTACTAAAACTTCTTAAGTCCCAGGCCAGCAAGCAGGTCATCGTGAGAGACTTTTCACAGGCTTATCATTGGTGTTTCTCAAAGGACTGGGATGTCACGGAATATGGTGTTTGTGACTTGATTGATATAATATCAGAGATCCCAGACACAACTATTTGCTTGTCCCAACAAGATGACGACATGGTCATTTGTATCCGAAAAAGAGAACGAACTCAGGATGAAATAGAAAGGACAAAGCAGTTCTCCAAAGATGTTGTGGACTTGCTGCGCCACCAGCCCCATTTCAGAATGCCCTTCAACAAGTTCATTCCCTCTTACCACCACCACTTTGGCCGACAGTGTAAACTTGCATACTATGGATTTACCAAGCTGCTTGAACTTTTGGAAGCCATACCTGAGATTTTACAAGTGAAGAGTGTTGAGCTCAGTCCCCATACTGATTACCAGCTCAAGGCCATTGTGCAGATGAGAAACCTGCACGAAGCAATCTGTGCAGTGAACAGCCTCCATAGGCACAAAATTGGCAGCAAGAAGATACTGGTCTCACTCTCCACAGGAGCTGCCAACAAGTCACTCTCTTTACTAAGCACAGAAACAATGTCTATTCTTCAGGATGCTCCTGCCTGTTGCTTGCCTCTCTTTAAATTTATAGACATCTATGAAAAGAAGTATGGACACAAGTTAAATGTGTCTGATTTATATAAATTAACAGACACTATTGCAATCCGTGAACAGGGAAACGGGCGATTGGTGTGTCTCTTACCTAGTAATCAGGCCCGCCAGAGCCCCCTGGGCTCTTCCCAGTCACATGATGGCTCCTCCTCAAACTGCAGCCCAGTTCTGTTTGAAGAGTTGGAGTATCACGAACCTGTCTGCAAGCAGCACTGCTCTAACAAGGACTTCAGTGAACTTGTGTTTGATCCAGACTCTTACAAGATTCCTTTTGTGGTTCTCTCTTTGAAAGTGTTCGCACCTCAAGTTCATAGTCTTCTGCAGACCCACCAGGGCACTGTGCCTTTGCTAAGCTTTCCAGATTGCTATGCTGCGGAGTTTGGTGACCTAGAAATTACGCAAGACAGCCACAAGGGTGTCCCCTTAGAGCACTTCATCACCTGCATTCCAGGAGTGAACATTGCCACTGCTCAGAATGGCGTCAAAGTAGTGAAGTGGATTCACAACAAGCCCCCACCTCCCAACACTGACCCTTGGCTTCTTCGTTCTAAAAGTCCTGTGAGAAATCCCCAGCTGATTCAGTTCAGCAGAGAGGTCATTGATTTACTGAAGACCCAGCCATCGTGTATACTACCCGTCAGCAATTTCATCCCTTCATACCATCACCACTTTGGAAAGCAGTGCAGGGTTTCAGACTATGGTTATTCCAAGCTGATTGAACTCCTAGAAGCTGTGCCTCATGTGTTGCAGATTCTTGGTATGGGCTCCAAGCGTCTGATGACCCTTACTCACAGGGCCCAGGTGAAGCGCTTTACTCAGGATTTACTAAAACTTCTTAAGTCCCAGGCCAGCAAGCAGGTCATCGTGAGAGACTTTTCACAGGCTTATCATTGGTGTTTCTCAAAGGACTGGGATGTCACGGAATATGGTGTTTGTGACTTGATTGATATAATATCAGAGATCCCAGACACAACTATTTGCTTGTCCCAACAAGATGACGACATGGTCATTTGTATCCGAAAAAGAGAACGAACTCAGGATGAAATAGAAAGGACAAAGCAGTTCTCCAAAGATGTTGTGGACTTGCTGCGCCACCAGCCCCATTTCAGAATGCCCTTCAACAAGTTCATTCCCTCTTACCACCACCACTTTGGCCGACAGTGTAAACTTGCATACTATGGATTTACCAAGCTGCTTGAACTTTTGGAAGCCATACCTGAGATTTTACAA
Peptide sequence:
MRNLHEAICAVNSLHRHKIGSKKILVSLSTGAANKSLSLLSTETMSILQDAPACCLPLFKFIDIYEKKYGHKLNVSDLYKLTDTIAIREQGNGRLVCLLPSNQARQSPLGSSQSHDGSSSNCSPVLFEELEYHEPVCKQHCSNKDFSELVFDPDSYKIPFVVLSLKVFAPQVHSLLQTHQGTVPLLSFPDCYAAEFGDLEITQDSHKGVPLEHFITCIPGVNIATAQNGVKVVKWIHNKPPPPNTDPWLLRSKSPVRNPQLIQFSREVIDLLKTQPSCILPVSNFIPSYHHHFGKQCRVSDYGYSKLIELLEAVPHVLQILGMGSKRLMTLTHRAQVKRFTQDLLKLLKSQASKQVIVRDFSQAYHWCFSKDWDVTEYGVCDLIDIISEIPDTTICLSQQDDDMVICIRKRERTQDEIERTKQFSKDVVDLLRHQPHFRMPFNKFIPSYHHHFGRQCKLAYYGFTKLLELLEAIPEILQVKSVELSPHTDYQLKAIVQMRNLHEAICAVNSLHRHKIGSKKILVSLSTGAANKSLSLLSTETMSILQDAPACCLPLFKFIDIYEKKYGHKLNVSDLYKLTDTIAIREQGNGRLVCLLPSNQARQSPLGSSQSHDGSSSNCSPVLFEELEYHEPVCKQHCSNKDFSELVFDPDSYKIPFVVLSLKVFAPQVHSLLQTHQGTVPLLSFPDCYAAEFGDLEITQDSHKGVPLEHFITCIPGVNIATAQNGVKVVKWIHNKPPPPNTDPWLLRSKSPVRNPQLIQFSREVIDLLKTQPSCILPVSNFIPSYHHHFGKQCRVSDYGYSKLIELLEAVPHVLQILGMGSKRLMTLTHRAQVKRFTQDLLKLLKSQASKQVIVRDFSQAYHWCFSKDWDVTEYGVCDLIDIISEIPDTTICLSQQDDDMVICIRKRERTQDEIERTKQFSKDVVDLLRHQPHFRMPFNKFIPSYHHHFGRQCKLAYYGFTKLLELLEAIPEILQ
IRESfinder result
IRESfinder score
0.740072687
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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