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mmu_circMarf1_1580
Basic information of circular RNA
PanCircBase ID:
mmu_circMarf1_1580
mm39_Chr. Position ID:
chr16|13963780|13971895|-
Gene name:
Marf1
Transcript:
ENSMUST00000090300.6
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
6
Exon/intron indexes:
7,6,5,4,3,2
Exon/intron offsets:
0,807,3099,5225,6109,7915
Genomic length:
8115
Exon/intron sizes in nt:
1,73,11,82,27,17,56,87,000
Flanking exon/introns:
chr16:13960521-13963780|chr16:13971895-13977007
Splice length:
1580
Other database IDs:
circAtlas: mmu-Marf1_0015
circAtlas: hsa-SCAF8_0001
Human Ortholog IDs:
Mature spliced Sequence:
GGTGGAAGAAAGAGAAAAGAAAGATGAAAGAATGTTGAACCATATTGTCTGGCTATGTGATGGAAGGGAAAGGAACTGAGAACCCTTGCAGCAGAACACTTGGATGGTTTCACCAAGATAATGATGCTAAGCCGTGGCTTTGGAAATTCTCTGGTTGCTTTTCTCGTCCCGAGCAGACATTGCCTCTTAGTTCCCAAACGAAAGAGTACATGGAGAACAAGAAAGCTGCTGTGGAGTTAAAGGATATACCATCTCCCCTTCATGTTGGCTCTAAATTTTTCCCAGCAGTCCCACTTCCTGATATTCGTTCTCTTCAGCAACCTAAAGTACAGCTCTCAGCTATTCCCAAAGTAAGCTGCTGTGCTCATTGCCCTAATGAACCCTCCACTTCACCCATGCGTTTTGGTGGTGGCAGTGGCAGTAGTGGAGGTTCTGGGAGCTTGATTCACACGGGCTCACTCTTAGACTCACCAAGCACTGGGACAGTCACGTGTCAAGTAGGGTCAGGTTTTGCTTTCCAGTCCGTGTCTTCACTGCAGAATGCCTCCACTAGGAACAACTTGGTGGGCCTTTCAAGTGACTTCCCCAGCATGTGTGTAGAGAGTAACCTACCTTCCTGCAAGCACCTGTCGTGTTGTGGGAAGCTCCATTTCCAGTCATGTCACAGTAATGTACACAAGCTGCATCAGTTCCAGAATCTTCAGGGCTGTGCCTCTGCTGGCTATTTCCCCTGTTCCGATTTCCCAAGTGGGGCTCCTGGGCATTTGGAAGAGCGCCTTTCCCATTCAGAGCTTACACCTCACTTGTGCACCAACTCTCTTCACCTAAATGTGGCACCTCCGGTTTGTTTAAAGGGCTCACTTTACTGTGAAGACTGTCTAAACAAGCCAGCAAGAAATAGTATAATTGATGCTGCTAAAATCTGGCCAAATATACCACCTCCAAGTACTCAGCCTGCACCTCCAGCTATTCCTGTGTGTAATGGCTGTGGAACAAAAGGCATGGAAAAGGAGACCTCATTGTTGTTGGCAACCAGTCTAGGCAAAACTGCTTCGAAATTTGGGTCACCAGAAGTTGCAGTCACTGGACAGGTGCTGGAGACCCTCCCCCCCATTGGCGTTTTCTGGGATATTGAAAACTGCTCAGTCCCCTCTGGCCGGTCAGCAACAACTGTTGTACAGAGAATCCGTGAGAAGTTTTTTAGAGGACACAGAGAAGCAGAGTTTATCTGTGTGTGTGACATCAGTAAAGAAAACAAGGAAGTTATTCAAGAGCTGAATAATTGTCAGGTAACCGTTGCTCACATAAATGCTACTGCAAAGAATGCTGCTGATGATAAACTCCGTCAGAGCCTGCGAAGGTTCGCAAACACGCACACTGCTCCAGCTACTGTGGTTCTTGTGTCAACTGATGTCAATTTTGCGTTGGAACTCAGTGATCTTAGGCACCGGCACGGTTTCCACATCATTTTGGTACATAAAAACCAGGCCTCTGAAGCCTTGTTACATCATGCTAACCAGCTGATCAGATTTGAAGAGTTCATTTCTGATCTCCCCCCTCGGTTACCACTGAAGATTCCT
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AGAGTTCATTTCTGATCTCCCCC
59.54
TCTGCTGCAAGGGTTCTCAG
59.96
141
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AGAGTTCATTTCTGATCTCCCCC
59.54
AGTGTTCTGCTGCAAGGGTT
60.11
146
PCR template sequence:
AAACCAGGCCTCTGAAGCCTTGTTACATCATGCTAACCAGCTGATCAGATTTGAAGAGTTCATTTCTGATCTCCCCCCTCGGTTACCACTGAAGATTCCTGGTGGAAGAAAGAGAAAAGAAAGATGAAAGAATGTTGAACCATATTGTCTGGCTATGTGATGGAAGGGAAAGGAACTGAGAACCCTTGCAGCAGAACACT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
15
Interacting miRNAs (#binding sites)
mmu-miR-103-3p(2), mmu-miR-107-3p(2), mmu-miR-210-3p(1), mmu-miR-16-5p(1), mmu-miR-27b-3p(1), mmu-miR-322-5p(1), mmu-miR-411-3p(1), mmu-miR-382-5p(1), mmu-miR-383-5p(1), mmu-miR-224-5p(1), mmu-miR-377-3p(1), mmu-miR-5101(1), mmu-miR-188-3p(1), mmu-miR-574-5p(1), mmu-miR-338-3p(1)
siRNAs for circular RNA silencing
Junction sequence
ACTGAAGATTCCTGGTGGAAGAAAGA
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCMARF1_1580_ORF_1
0.728
0.016268476
0.999307314
1548
ORF sequence:
ATGGAAGGGAAAGGAACTGAGAACCCTTGCAGCAGAACACTTGGATGGTTTCACCAAGATAATGATGCTAAGCCGTGGCTTTGGAAATTCTCTGGTTGCTTTTCTCGTCCCGAGCAGACATTGCCTCTTAGTTCCCAAACGAAAGAGTACATGGAGAACAAGAAAGCTGCTGTGGAGTTAAAGGATATACCATCTCCCCTTCATGTTGGCTCTAAATTTTTCCCAGCAGTCCCACTTCCTGATATTCGTTCTCTTCAGCAACCTAAAGTACAGCTCTCAGCTATTCCCAAAGTAAGCTGCTGTGCTCATTGCCCTAATGAACCCTCCACTTCACCCATGCGTTTTGGTGGTGGCAGTGGCAGTAGTGGAGGTTCTGGGAGCTTGATTCACACGGGCTCACTCTTAGACTCACCAAGCACTGGGACAGTCACGTGTCAAGTAGGGTCAGGTTTTGCTTTCCAGTCCGTGTCTTCACTGCAGAATGCCTCCACTAGGAACAACTTGGTGGGCCTTTCAAGTGACTTCCCCAGCATGTGTGTAGAGAGTAACCTACCTTCCTGCAAGCACCTGTCGTGTTGTGGGAAGCTCCATTTCCAGTCATGTCACAGTAATGTACACAAGCTGCATCAGTTCCAGAATCTTCAGGGCTGTGCCTCTGCTGGCTATTTCCCCTGTTCCGATTTCCCAAGTGGGGCTCCTGGGCATTTGGAAGAGCGCCTTTCCCATTCAGAGCTTACACCTCACTTGTGCACCAACTCTCTTCACCTAAATGTGGCACCTCCGGTTTGTTTAAAGGGCTCACTTTACTGTGAAGACTGTCTAAACAAGCCAGCAAGAAATAGTATAATTGATGCTGCTAAAATCTGGCCAAATATACCACCTCCAAGTACTCAGCCTGCACCTCCAGCTATTCCTGTGTGTAATGGCTGTGGAACAAAAGGCATGGAAAAGGAGACCTCATTGTTGTTGGCAACCAGTCTAGGCAAAACTGCTTCGAAATTTGGGTCACCAGAAGTTGCAGTCACTGGACAGGTGCTGGAGACCCTCCCCCCCATTGGCGTTTTCTGGGATATTGAAAACTGCTCAGTCCCCTCTGGCCGGTCAGCAACAACTGTTGTACAGAGAATCCGTGAGAAGTTTTTTAGAGGACACAGAGAAGCAGAGTTTATCTGTGTGTGTGACATCAGTAAAGAAAACAAGGAAGTTATTCAAGAGCTGAATAATTGTCAGGTAACCGTTGCTCACATAAATGCTACTGCAAAGAATGCTGCTGATGATAAACTCCGTCAGAGCCTGCGAAGGTTCGCAAACACGCACACTGCTCCAGCTACTGTGGTTCTTGTGTCAACTGATGTCAATTTTGCGTTGGAACTCAGTGATCTTAGGCACCGGCACGGTTTCCACATCATTTTGGTACATAAAAACCAGGCCTCTGAAGCCTTGTTACATCATGCTAACCAGCTGATCAGATTTGAAGAGTTCATTTCTGATCTCCCCCCTCGGTTACCACTGAAGATTCCTGGTGGAAGAAAGAGAAAAGAAAGATGA
Peptide sequence:
MEGKGTENPCSRTLGWFHQDNDAKPWLWKFSGCFSRPEQTLPLSSQTKEYMENKKAAVELKDIPSPLHVGSKFFPAVPLPDIRSLQQPKVQLSAIPKVSCCAHCPNEPSTSPMRFGGGSGSSGGSGSLIHTGSLLDSPSTGTVTCQVGSGFAFQSVSSLQNASTRNNLVGLSSDFPSMCVESNLPSCKHLSCCGKLHFQSCHSNVHKLHQFQNLQGCASAGYFPCSDFPSGAPGHLEERLSHSELTPHLCTNSLHLNVAPPVCLKGSLYCEDCLNKPARNSIIDAAKIWPNIPPPSTQPAPPAIPVCNGCGTKGMEKETSLLLATSLGKTASKFGSPEVAVTGQVLETLPPIGVFWDIENCSVPSGRSATTVVQRIREKFFRGHREAEFICVCDISKENKEVIQELNNCQVTVAHINATAKNAADDKLRQSLRRFANTHTAPATVVLVSTDVNFALELSDLRHRHGFHIILVHKNQASEALLHHANQLIRFEEFISDLPPRLPLKIPGGRKRKER
IRESfinder result
IRESfinder score
0.663198139
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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