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mmu_circCenpf_969
Basic information of circular RNA
PanCircBase ID:
mmu_circCenpf_969
mm39_Chr. Position ID:
chr1|189378998|189383497|-
Gene name:
Cenpf
Transcript:
ENSMUST00000171929.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
17,16,15,14
Exon/intron offsets:
0,1809,3760,4346
Genomic length:
4499
Exon/intron sizes in nt:
1,79,47,71,60,153
Flanking exon/introns:
chr1:189374999-189378998|chr1:189383497-189384457
Splice length:
969
Other database IDs:
CIRCpedia: MMU_CIRCpedia_229252, circAtlas: mmu-Cenpf_0005
CIRCpedia: HSA_CIRCpedia_116967
Human Ortholog IDs:
Mature spliced Sequence:
GTTAGCACAATATCTGGGAAGGAAGCAGAGCTGCAGAGGGAGCTGCGAGATATGCTACAGAAAACAACACAGCTGAGCGAAGACTACAATAAAGAGAAAAACAGGCTAACAGAAGAAGTGGAAGTGCTGCGTGAAGAACTGCAGAACACCAAAGCAGCGCACCTGAAATCTGTGAATCAACTTGAGAAGGAACTTCAGCGTGCTCAGGGGAAAATAAAGTTGATGCTCAAATCCTGTAGACAGCTGGAAGGAGAAAAGGAGATGCTGCAGAAGGAGCTCTCCCAGCTTGAAGCTGCACAGCAGCAGAGAGCAGGTTCTCTTGTAGACAGTAACGTAGATGAAGTAATGACTGAGAACAAAGCGCTGAAAGAGACTCTGGAAGAAAAAGTCAAGGAAGCAGATAAGTACTTGGATAAGTACTGTTCCCTGCTGATAAGCCACGAGGAGCTCGAGAAAGCCAAGGAGATATTAGAAATAGAAGTTGCTCGGCTGAAGTCACGGCAGTCCAGACAGGATCTCCAGAGTTCTCCTTTGCTTAATTCTTCCATTCCAGGACCGTCTCCAAATACTTCTGTTAGTGAGATGAAGTCAGCATCTGGCCAAAATAAAGCTTCAGGCAAGAGGCAAAGGTCCAGTGGGATTTGGGAGCATGGTAAACGGGCAGCACCTTCTACAGCAGAGACATTTTCTAAGAAAAGCAGGAAGTCGGACAGTAAGAGCACTCGCCCTGCTGAGCACGAGCAGGAAACCGAGTTTGAGCCAGAAGGCCTCCCAGAAGTCGTTAAAAAAGGGTTTGCTGACATCCCAACTGGAAAGACAAGCCCATATATCCTTCGGAGAACAACCATGGCAACCAGGACCAGCCCCCGCTTTGCTACACAGAAGTTAGTGGGATCTTCCCCATCTCTGGGCAAAGAAAATGTTGTAGAGTCCTCCAAACCAACAGCTGGTGGCAGCAGATCACAAAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGCTACACAGAAGTTAGTGGGA
58.76
TCTTCGCTCAGCTGTGTTGT
59.9
180
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CCATCTCTGGGCAAAGAAAATGT
59.49
TCTTCGCTCAGCTGTGTTGT
59.9
152
PCR template sequence:
CTTTGCTACACAGAAGTTAGTGGGATCTTCCCCATCTCTGGGCAAAGAAAATGTTGTAGAGTCCTCCAAACCAACAGCTGGTGGCAGCAGATCACAAAAGGTTAGCACAATATCTGGGAAGGAAGCAGAGCTGCAGAGGGAGCTGCGAGATATGCTACAGAAAACAACACAGCTGAGCGAAGACTACAATAAAGAGAAAA
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-9-5p(1), mmu-miR-150-5p(1), mmu-miR-125b-5p(1), mmu-miR-384-3p(1)
siRNAs for circular RNA silencing
Junction sequence
CAGATCACAAAAGGTTAGCACAATAT
siRNA sets
ATTGTGCTAACCTTTTGTG, ATATTGTGCTAACCTTTTG, TATTGTGCTAACCTTTTGT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCCENPF_969_ORF_1
0.9532
0.22791972
0.999983845
1887
ORF sequence:
ATGCTACAGAAAACAACACAGCTGAGCGAAGACTACAATAAAGAGAAAAACAGGCTAACAGAAGAAGTGGAAGTGCTGCGTGAAGAACTGCAGAACACCAAAGCAGCGCACCTGAAATCTGTGAATCAACTTGAGAAGGAACTTCAGCGTGCTCAGGGGAAAATAAAGTTGATGCTCAAATCCTGTAGACAGCTGGAAGGAGAAAAGGAGATGCTGCAGAAGGAGCTCTCCCAGCTTGAAGCTGCACAGCAGCAGAGAGCAGGTTCTCTTGTAGACAGTAACGTAGATGAAGTAATGACTGAGAACAAAGCGCTGAAAGAGACTCTGGAAGAAAAAGTCAAGGAAGCAGATAAGTACTTGGATAAGTACTGTTCCCTGCTGATAAGCCACGAGGAGCTCGAGAAAGCCAAGGAGATATTAGAAATAGAAGTTGCTCGGCTGAAGTCACGGCAGTCCAGACAGGATCTCCAGAGTTCTCCTTTGCTTAATTCTTCCATTCCAGGACCGTCTCCAAATACTTCTGTTAGTGAGATGAAGTCAGCATCTGGCCAAAATAAAGCTTCAGGCAAGAGGCAAAGGTCCAGTGGGATTTGGGAGCATGGTAAACGGGCAGCACCTTCTACAGCAGAGACATTTTCTAAGAAAAGCAGGAAGTCGGACAGTAAGAGCACTCGCCCTGCTGAGCACGAGCAGGAAACCGAGTTTGAGCCAGAAGGCCTCCCAGAAGTCGTTAAAAAAGGGTTTGCTGACATCCCAACTGGAAAGACAAGCCCATATATCCTTCGGAGAACAACCATGGCAACCAGGACCAGCCCCCGCTTTGCTACACAGAAGTTAGTGGGATCTTCCCCATCTCTGGGCAAAGAAAATGTTGTAGAGTCCTCCAAACCAACAGCTGGTGGCAGCAGATCACAAAAGGTTAGCACAATATCTGGGAAGGAAGCAGAGCTGCAGAGGGAGCTGCGAGATATGCTACAGAAAACAACACAGCTGAGCGAAGACTACAATAAAGAGAAAAACAGGCTAACAGAAGAAGTGGAAGTGCTGCGTGAAGAACTGCAGAACACCAAAGCAGCGCACCTGAAATCTGTGAATCAACTTGAGAAGGAACTTCAGCGTGCTCAGGGGAAAATAAAGTTGATGCTCAAATCCTGTAGACAGCTGGAAGGAGAAAAGGAGATGCTGCAGAAGGAGCTCTCCCAGCTTGAAGCTGCACAGCAGCAGAGAGCAGGTTCTCTTGTAGACAGTAACGTAGATGAAGTAATGACTGAGAACAAAGCGCTGAAAGAGACTCTGGAAGAAAAAGTCAAGGAAGCAGATAAGTACTTGGATAAGTACTGTTCCCTGCTGATAAGCCACGAGGAGCTCGAGAAAGCCAAGGAGATATTAGAAATAGAAGTTGCTCGGCTGAAGTCACGGCAGTCCAGACAGGATCTCCAGAGTTCTCCTTTGCTTAATTCTTCCATTCCAGGACCGTCTCCAAATACTTCTGTTAGTGAGATGAAGTCAGCATCTGGCCAAAATAAAGCTTCAGGCAAGAGGCAAAGGTCCAGTGGGATTTGGGAGCATGGTAAACGGGCAGCACCTTCTACAGCAGAGACATTTTCTAAGAAAAGCAGGAAGTCGGACAGTAAGAGCACTCGCCCTGCTGAGCACGAGCAGGAAACCGAGTTTGAGCCAGAAGGCCTCCCAGAAGTCGTTAAAAAAGGGTTTGCTGACATCCCAACTGGAAAGACAAGCCCATATATCCTTCGGAGAACAACCATGGCAACCAGGACCAGCCCCCGCTTTGCTACACAGAAGTTAGTGGGATCTTCCCCATCTCTGGGCAAAGAAAATGTTGTAGAGTCCTCCAAACCAACAGCTGGTGGCAGCAGATCACAAAAG
Peptide sequence:
MLQKTTQLSEDYNKEKNRLTEEVEVLREELQNTKAAHLKSVNQLEKELQRAQGKIKLMLKSCRQLEGEKEMLQKELSQLEAAQQQRAGSLVDSNVDEVMTENKALKETLEEKVKEADKYLDKYCSLLISHEELEKAKEILEIEVARLKSRQSRQDLQSSPLLNSSIPGPSPNTSVSEMKSASGQNKASGKRQRSSGIWEHGKRAAPSTAETFSKKSRKSDSKSTRPAEHEQETEFEPEGLPEVVKKGFADIPTGKTSPYILRRTTMATRTSPRFATQKLVGSSPSLGKENVVESSKPTAGGSRSQKVSTISGKEAELQRELRDMLQKTTQLSEDYNKEKNRLTEEVEVLREELQNTKAAHLKSVNQLEKELQRAQGKIKLMLKSCRQLEGEKEMLQKELSQLEAAQQQRAGSLVDSNVDEVMTENKALKETLEEKVKEADKYLDKYCSLLISHEELEKAKEILEIEVARLKSRQSRQDLQSSPLLNSSIPGPSPNTSVSEMKSASGQNKASGKRQRSSGIWEHGKRAAPSTAETFSKKSRKSDSKSTRPAEHEQETEFEPEGLPEVVKKGFADIPTGKTSPYILRRTTMATRTSPRFATQKLVGSSPSLGKENVVESSKPTAGGSRSQK
IRESfinder result
IRESfinder score
0.4189552
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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