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mmu_circMyt1l_1334
Basic information of circular RNA
PanCircBase ID:
mmu_circMyt1l_1334
mm39_Chr. Position ID:
chr12|29861371|29877836|+
Gene name:
Myt1l
Transcript:
ENSMUST00000049784.17
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
9,10
Exon/intron offsets:
0,15493
Genomic length:
16465
Exon/intron sizes in nt:
3,62,972
Flanking exon/introns:
chr12:29834312-29861371|chr12:29877836-29882286
Splice length:
1334
Other database IDs:
CIRCpedia: MMU_CIRCpedia_15592, circAtlas: mmu-Myt1l_0039
Human Ortholog IDs:
Mature spliced Sequence:
TGTATATGGTTGTCCCTTGGCTAAAAAAAGAAAAACGCAAGATAAACAGCCCCAAGAACCTGCTCCCAAGCGAAAACCATTTGCAGTAAAAGCAGATAGTTCCTCAGTAGACGAATGTTATGAGAGTGATGGTACTGAAGACATGGATGATAAGGAGGAAGATGATGATGAGGAGTTCTCTGAAGACAATGATGAGCAAGGGGATGATGACGACGAAGATGAGGTGGATCGGGAAGACGAGGAGGAGATCGAGGAGGAAGATGATGAAGAAGATGATGATGATGAAGATGGTGACGATGTAGAAGAGGAAGAAGAGGATGATGATGAAGAGGAGGAAGAAGAGGAAGAGGAAGAAGAAAATGAAGACCATCAAATGAGTTGTACTCGAATAATGCAGGACACAGACAAGGATGATAACAACAATGATGAGTATGATAACTATGATGAACTGGTAGCTAAGTCGCTATTAAATCTTGGCAAAATTGCTGAGGATGCAGCATACCGAGCCAGGACTGAATCAGAGATGAACAGCAATACCTCCAATAGTCTGGAGGACGATAGTGACAAAAACGAAAACCTCGGTCGGAAAAGCGAACTGAGTCTAGACTTAGACAGTGATGTTGTTAGAGAAACAGTGGACTCCCTTAAGCTGTTAGCACAAGGACATGGTGTTGTGCTATCAGAGAATATCAGTGACAGAAGTTATGCTGAGGGGATGTCACAGCAGGACAGTAGAAATATGAACTATGTCATGCTAGGGAAGCCCATGAACAATGGACTCATGGAGAAGATGGTGGAGGAGAGTGATGAGGAAGTGTGTCTAAGTAGTCTAGAGTGCCTGAGGAACCAGTGCTTTGACCTGGCCAGGAAACTCAGCGAGACCAACCCACAGGACAGGAGTCAGCCACCCAACATGAGTGTGCGCCAACATGTCCGGCAAGAGGACGACTTCCCTGGGAGGACGCCAGACAGGAGCTACTCGGATATGATGAACCTTATGCGGCTGGAGGAGCAGCTCAGTCCCAGGTCTAGAACGTTCTCCAGCTGTGCCAAGGAGGATGGGTGTCATGAGAGGGATGATGACACCACCTCAGTGAACTCAGACAGGTCTGAGGAAGTGTTTGACATGACCAAGGGCAACCTGACTCTGCTAGAGAAAGCCATTGCCTTGGAGACAGAGAGAGCCAAGGCCATGCGGGAGAAGATGGCCATGGATGCTGGGAGAAGGGATAACCTGAGATCCTATGAGGACCAGTCTCCAAGACAGCTGGCTGGGGAAGACAGAAAATCCAAATCCAGTGACAGCCATGTCAAAAAGCCATACTATGGTAAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GTCTCCAAGACAGCTGGCTG
60.67
AATGGTTTTCGCTTGGGAGC
59.4
161
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GTCTCCAAGACAGCTGGCTG
60.67
CTTGGGAGCAGGTTCTTGGG
60.61
150
PCR template sequence:
CTGAGATCCTATGAGGACCAGTCTCCAAGACAGCTGGCTGGGGAAGACAGAAAATCCAAATCCAGTGACAGCCATGTCAAAAAGCCATACTATGGTAAAGTGTATATGGTTGTCCCTTGGCTAAAAAAAGAAAAACGCAAGATAAACAGCCCCAAGAACCTGCTCCCAAGCGAAAACCATTTGCAGTAAAAGCAGATAGT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
9
Interacting miRNAs (#binding sites)
mmu-miR-207(3), mmu-miR-135a-5p(2), mmu-miR-211-5p(1), mmu-miR-149-5p(1), mmu-miR-370-3p(1), mmu-miR-425-5p(1), mmu-miR-335-3p(1), mmu-miR-338-3p(1), mmu-miR-181d-5p(1)
siRNAs for circular RNA silencing
Junction sequence
TACTATGGTAAAGTGTATATGGTTGT
siRNA sets
CAACCATATACACTTTACC, TATACACTTTACCATAGTA, AACCATATACACTTTACCA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCMYT1L_1334_ORF_1
1.24
0.467940269
0.999713597
1281
ORF sequence:
ATGGATGATAAGGAGGAAGATGATGATGAGGAGTTCTCTGAAGACAATGATGAGCAAGGGGATGATGACGACGAAGATGAGGTGGATCGGGAAGACGAGGAGGAGATCGAGGAGGAAGATGATGAAGAAGATGATGATGATGAAGATGGTGACGATGTAGAAGAGGAAGAAGAGGATGATGATGAAGAGGAGGAAGAAGAGGAAGAGGAAGAAGAAAATGAAGACCATCAAATGAGTTGTACTCGAATAATGCAGGACACAGACAAGGATGATAACAACAATGATGAGTATGATAACTATGATGAACTGGTAGCTAAGTCGCTATTAAATCTTGGCAAAATTGCTGAGGATGCAGCATACCGAGCCAGGACTGAATCAGAGATGAACAGCAATACCTCCAATAGTCTGGAGGACGATAGTGACAAAAACGAAAACCTCGGTCGGAAAAGCGAACTGAGTCTAGACTTAGACAGTGATGTTGTTAGAGAAACAGTGGACTCCCTTAAGCTGTTAGCACAAGGACATGGTGTTGTGCTATCAGAGAATATCAGTGACAGAAGTTATGCTGAGGGGATGTCACAGCAGGACAGTAGAAATATGAACTATGTCATGCTAGGGAAGCCCATGAACAATGGACTCATGGAGAAGATGGTGGAGGAGAGTGATGAGGAAGTGTGTCTAAGTAGTCTAGAGTGCCTGAGGAACCAGTGCTTTGACCTGGCCAGGAAACTCAGCGAGACCAACCCACAGGACAGGAGTCAGCCACCCAACATGAGTGTGCGCCAACATGTCCGGCAAGAGGACGACTTCCCTGGGAGGACGCCAGACAGGAGCTACTCGGATATGATGAACCTTATGCGGCTGGAGGAGCAGCTCAGTCCCAGGTCTAGAACGTTCTCCAGCTGTGCCAAGGAGGATGGGTGTCATGAGAGGGATGATGACACCACCTCAGTGAACTCAGACAGGTCTGAGGAAGTGTTTGACATGACCAAGGGCAACCTGACTCTGCTAGAGAAAGCCATTGCCTTGGAGACAGAGAGAGCCAAGGCCATGCGGGAGAAGATGGCCATGGATGCTGGGAGAAGGGATAACCTGAGATCCTATGAGGACCAGTCTCCAAGACAGCTGGCTGGGGAAGACAGAAAATCCAAATCCAGTGACAGCCATGTCAAAAAGCCATACTATGGTAAAGTGTATATGGTTGTCCCTTGGCTAAAAAAAGAAAAACGCAAGATAAACAGCCCCAAGAACCTGCTCCCAAGCGAAAACCATTTGCAGTAA
Peptide sequence:
MDDKEEDDDEEFSEDNDEQGDDDDEDEVDREDEEEIEEEDDEEDDDDEDGDDVEEEEEDDDEEEEEEEEEEENEDHQMSCTRIMQDTDKDDNNNDEYDNYDELVAKSLLNLGKIAEDAAYRARTESEMNSNTSNSLEDDSDKNENLGRKSELSLDLDSDVVRETVDSLKLLAQGHGVVLSENISDRSYAEGMSQQDSRNMNYVMLGKPMNNGLMEKMVEESDEEVCLSSLECLRNQCFDLARKLSETNPQDRSQPPNMSVRQHVRQEDDFPGRTPDRSYSDMMNLMRLEEQLSPRSRTFSSCAKEDGCHERDDDTTSVNSDRSEEVFDMTKGNLTLLEKAIALETERAKAMREKMAMDAGRRDNLRSYEDQSPRQLAGEDRKSKSSDSHVKKPYYGKVYMVVPWLKKEKRKINSPKNLLPSENHLQ
IRESfinder result
IRESfinder score
0.170118377
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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