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mmu_ciMyt1_1866
Basic information of circular RNA
PanCircBase ID:
mmu_ciMyt1_1866
mm39_Chr. Position ID:
chr2|181444822|181446688|+
Gene name:
Myt1
Transcript:
ENSMUST00000081125.11
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
10
Exon/intron offsets:
0
Genomic length:
1866
Exon/intron sizes in nt:
1866
Flanking exon/introns:
chr2:181444822-181446719
Splice length:
1866
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTAGGTGAGATTAGAAGTACTTTCCAAATATCTTCAGGGACTTCAGTGTTATGGCTGTGTGGTATGAATATGCTTCTTGGCACACAAGACACTTACACTCAAAGCGCCTCATCCAAGGTGCAAACAGCTGCCTATCCTTAGCCACAGTGTATTCTGCCCTTCTTTCTCCTAAGACATCTGATACAGTCAGGAAAATTATTCAGTCTTAGTGTGTAGAGATAGTAGACTACACTAGTTGAGGACCTCACTATACAGGGAGCACCTAGTTGTTCTTATGTCTCCCACATCAGGATGGATTCTATTCTGGGGCAGAGGAAAGGAAGGCAGAGGAAAGAAGGGCAGAGGACTTGCTCCTCTGAGTGCTGCCTCCTGTGGGTACTAAGCATTGGAGACAACAGCAGGCATAGGTACCTGTAGGGATATGCATGTCTGCATGCTCTGTATATATGTACACCCATATGAATAAGTTTACAAATGTGTTCTAATGCATGTGCATGCATGGTATCATTGAGGGGCCTTCTGACAGAACAACCAGGACAAATTTGCCTAGTGCCTCTCCATACAGGTAACCTTGGAAAGTGAGTGTTATAAATAAGGCCAGAAGTTTGGGCTCATGTTCCTGGATGGCCTGCCTTAAAAGATTTATTTGAGGTGAACTATAGTCTCCTTCTGGGGTTGGAGGTTCATTCAAGTCACTGACTGAGAGTATAATGTCACTTTTGATCTTCACTCAGTATACACAGTTCTTCATTTTCCTGAGAATATAGAACTCACAACTCCTTCTCCCTGGTTCTTAGACTCCTGTTCCATGTTTCTCTTCTCACATGCAGTGTGGGAGACAAGACCATGTACTCAGTAAAGCCAACCACTGGCTGACATGGCACTATTGCCTCTTTATAGGACCCCTGATCACCACCTTCCTTTTTGGCTACTTTCCTTGGAAGTGCTATACCCTGGTCATTTCCTGGCCAACTCCAAAGGGACTCTAAATAGGTGCGTTACCACAAAACACAGCTTAGGGATATAGGGACTTATTTTCCTGTTCTGTGGAGTACTTGTGTTCCATTCATGGACACCTTTGACTTTGTGGGTCCCAGGTAGCATAGTTGTCCATCTTATTTGTTCTTCCTTCCAGCTTCTTGTCAGTTGTTTGTTGATCCTTTCGCCAATAAATGACACCAATGTAGAGGTCAAGTTAAATGTCTCCTTGAGGGTATCAGATAGTCTTGCTCTTGCAGCTTCCCCAGGAGTTGCTGAGCATAGTGCCCAGCCTAGGACTTCATTCCACCATAGAGCCAATCTTATCACTGCTGTTATGTGGTCTTCACAGGACCTTAAGAATGGTCTTACAGTACCAGCCTTCTGGTTCTCTCCTCAGCCACATTCAAGTTTCTCAGGTATCCTCACCATCATTTCCAAGTACCGCTGATCACTGAAGCCATTGCTCATTACAGACCAGAACAAGGAGAGCTAGGGCATTTGCTGGAGCTCCTTCTTTCTTCCATTTCCCCTCCACCTCTGAGCTTCCTGTTCAGAAACTCACTGTTGTGTAGCTGAGCTCGTGGAACTTGCTCTCTTACATTTTGGAGGAAGTTCAAGCTTGCTACTTTGGCATAATACTAGCATAAGAACACATTATTATTTCTTTCAGGTTCTATTGTTTCCTCCTTATAGGCAACTGATAATGGGCCTATCCTAGGGTCCCTTAATTCTGGGAGGCAGAATTTTGACCAAACATTAGGGGCAGGATTTTGGAAGTGTGTGTATCTCCCTGGGTTTTCCTTATCACCTTGATGCATGAAGACCTGGCTTGCGCCATTGGAGGGTTGGGGGAGAGGTAGCATGGGGTCTTTGAGTCCCAACCTT
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GTTGGGGGAGAGGTAGCATG
59.82
AGTGTAAGTGTCTTGTGTGCCA
60.09
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGATGCATGAAGACCTGGCT
59.38
AGTGTAAGTGTCTTGTGTGCCA
60.09
174
PCR template sequence:
TCTCCCTGGGTTTTCCTTATCACCTTGATGCATGAAGACCTGGCTTGCGCCATTGGAGGGTTGGGGGAGAGGTAGCATGGGGTCTTTGAGTCCCAACCTTGTAGGTGAGATTAGAAGTACTTTCCAAATATCTTCAGGGACTTCAGTGTTATGGCTGTGTGGTATGAATATGCTTCTTGGCACACAAGACACTTACACTC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
14
Interacting miRNAs (#binding sites)
mmu-miR-670-5p(2), mmu-miR-26a-5p(1), mmu-miR-335-5p(1), mmu-miR-138-5p(1), mmu-miR-185-5p(1), mmu-miR-494-3p(1), mmu-miR-127-5p(1), mmu-miR-499-5p(1), mmu-miR-1198-5p(1), mmu-miR-300-3p(1), mmu-miR-669d-5p(1), mmu-miR-188-3p(1), mmu-miR-3065-5p(1), mmu-miR-574-5p(1)
siRNAs for circular RNA silencing
Junction sequence
GAGTCCCAACCTTGTAGGTGAGATTA
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIMYT1_1866_ORF_1
0.6191
-0.184877003
0.031692034
210
ORF sequence:
ATGAAGACCTGGCTTGCGCCATTGGAGGGTTGGGGGAGAGGTAGCATGGGGTCTTTGAGTCCCAACCTTGTAGGTGAGATTAGAAGTACTTTCCAAATATCTTCAGGGACTTCAGTGTTATGGCTGTGTGGTATGAATATGCTTCTTGGCACACAAGACACTTACACTCAAAGCGCCTCATCCAAGGTGCAAACAGCTGCCTATCCTTAG
Peptide sequence:
MKTWLAPLEGWGRGSMGSLSPNLVGEIRSTFQISSGTSVLWLCGMNMLLGTQDTYTQSASSKVQTAAYP
IRESfinder result
IRESfinder score
0.804412582
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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