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mmu_circMitf_408
Basic information of circular RNA
PanCircBase ID:
mmu_circMitf_408
mm39_Chr. Position ID:
chr6|97970087|97973430|+
Gene name:
Mitf
Transcript:
ENSMUST00000203884.3
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
3,4,5
Exon/intron offsets:
0,1254,3247
Genomic length:
3343
Exon/intron sizes in nt:
228,84,96
Flanking exon/introns:
chr6:97918263-97970087|chr6:97973430-97980847
Splice length:
408
Other database IDs:
circAtlas: mmu-Mitf_0002
circAtlas: hsa-MITF_0002, CIRCpedia: HSA_CIRCpedia_46738
Human Ortholog IDs:
Mature spliced Sequence:
GTGCAGACCCACCTGGAAAACCCCACCAAGTACCACATACAGCAAGCTCAGAGGCACCAGGTAAAGCAGTACCTTTCTACCACTTTAGCAAATAAACATGCCAGCCAAGTCCTGAGCTCACCATGTCCAAACCAGCCTGGCGACCATGCCATGCCACCAGTGCCGGGGAGCAGCGCACCCAACAGCCCTATGGCTATGCTCACTCTTAACTCCAACTGTGAAAAAGAGGCATTTTATAAGTTTGAGGAGCAGAGCAGGGCAGAGAGTGAGTGCCCAGGTATGAACACGCACTCTCGAGCGTCGTGCATGCAGATGGATGATGTAATTGATGACATCATCAGCCTGGAATCAAGTTATAATGAAGAAATTTTGGGCTTGATGGATCCGGCCTTGCAAATGGCAAATACG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGACATCATCAGCCTGGAATCA
59.49
TGCTTTACCTGGTGCCTCTG
59.96
147
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGACATCATCAGCCTGGAATCA
59.49
ACTGCTTTACCTGGTGCCTC
59.96
149
PCR template sequence:
GCAGATGGATGATGTAATTGATGACATCATCAGCCTGGAATCAAGTTATAATGAAGAAATTTTGGGCTTGATGGATCCGGCCTTGCAAATGGCAAATACGGTGCAGACCCACCTGGAAAACCCCACCAAGTACCACATACAGCAAGCTCAGAGGCACCAGGTAAAGCAGTACCTTTCTACCACTTTAGCAAATAAACATG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
4
Interacting miRNAs (#binding sites)
mmu-miR-127-3p(1), mmu-miR-29b-1-5p(1), mmu-miR-297a-5p(1), mmu-miR-29b-2-5p(1)
siRNAs for circular RNA silencing
Junction sequence
AATGGCAAATACGGTGCAGACCCACC
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCMITF_408_ORF_1
1.0084
0.257641555
0.922193425
666
ORF sequence:
ATGCCACCAGTGCCGGGGAGCAGCGCACCCAACAGCCCTATGGCTATGCTCACTCTTAACTCCAACTGTGAAAAAGAGGCATTTTATAAGTTTGAGGAGCAGAGCAGGGCAGAGAGTGAGTGCCCAGGTATGAACACGCACTCTCGAGCGTCGTGCATGCAGATGGATGATGTAATTGATGACATCATCAGCCTGGAATCAAGTTATAATGAAGAAATTTTGGGCTTGATGGATCCGGCCTTGCAAATGGCAAATACGGTGCAGACCCACCTGGAAAACCCCACCAAGTACCACATACAGCAAGCTCAGAGGCACCAGGTAAAGCAGTACCTTTCTACCACTTTAGCAAATAAACATGCCAGCCAAGTCCTGAGCTCACCATGTCCAAACCAGCCTGGCGACCATGCCATGCCACCAGTGCCGGGGAGCAGCGCACCCAACAGCCCTATGGCTATGCTCACTCTTAACTCCAACTGTGAAAAAGAGGCATTTTATAAGTTTGAGGAGCAGAGCAGGGCAGAGAGTGAGTGCCCAGGTATGAACACGCACTCTCGAGCGTCGTGCATGCAGATGGATGATGTAATTGATGACATCATCAGCCTGGAATCAAGTTATAATGAAGAAATTTTGGGCTTGATGGATCCGGCCTTGCAAATGGCAAATACG
Peptide sequence:
MPPVPGSSAPNSPMAMLTLNSNCEKEAFYKFEEQSRAESECPGMNTHSRASCMQMDDVIDDIISLESSYNEEILGLMDPALQMANTVQTHLENPTKYHIQQAQRHQVKQYLSTTLANKHASQVLSSPCPNQPGDHAMPPVPGSSAPNSPMAMLTLNSNCEKEAFYKFEEQSRAESECPGMNTHSRASCMQMDDVIDDIISLESSYNEEILGLMDPALQMANT
IRESfinder result
IRESfinder score
0.218689547
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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