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mmu_ciPlekhm1_2664
Basic information of circular RNA
PanCircBase ID:
mmu_ciPlekhm1_2664
mm39_Chr. Position ID:
chr11|103259023|103261687|-
Gene name:
Plekhm1
Transcript:
ENSMUST00000041272.10
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
9
Exon/intron offsets:
0
Genomic length:
2664
Exon/intron sizes in nt:
2664
Flanking exon/introns:
chr11:103258997-103261687
Splice length:
2664
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTGAGCACTCTTTCATATGCACATGTCCCTGTGAGTGTACACACCAGCCAAAACCTGGGCCATGTGTCCACTGGGCAGACGCCAGGGCTGCGCTGGGAATGTCCCACTGGGCTGTGGGAAATCACTTCATCCTTTGAGGGTAGTTTGTGGTTTTGTTTATATGGTCATTCATTTGTTTAACAAAAATTTATGAAAACGGCTGTTCAGAAGAGGTCAGTGAATATTGTGCTGAGTGAGGCAGACCCAAGGCCTCCCTTCAGGAAGTCACTGGTCTGGTAGGAGGCAGTGAGCCAGCAACACCTCCCACCAGGGGCAAAGGTGGGAGAGAGGATGGATGGTCCAGATGCACAGGGAGACCTGACCTGAAGGGCAGGAAGATACATCAGAAAGAGTCCTGAAGGGAGTGACTTCTGAGGTGAGACCTGGGAAGTAAGAAGTGGAAGAGAGGAAGTAGAAGAGGAAGAGGAGGGTTGGGTGAGGAGGAGGAGGAGCACCATCTTGGGAAGCTCAGTGCCAGCTTAGGCGGAGACGGAGGGAAGTGGGCAGAGGGGTAAAGGGCAGCAGAGAGAGGGATGCTAGCCCGGCTCATCCCCTGGCTGCTGTTGTCCTGGGGACAACATTTCTCTGCAGGTCGTCTCCGGCATGTGCAATTGGTGACACTCAGGAGACCCCTCTAGAAGCCCCTTGCTACTCTGAGCCTGGTCCTTTGGTGCTCAGGGCATGAGGGTGACCTTGCACGTAAGGATAGTCTTACAAGGGTTCTGTGACTGCCTCATGCATCACCAGGACCTACAGTCATGAGCAAAGATGTAGCTCTCTGGGGCTGTTCTCTCTGGGGTCCTCAGGAAGGCGTGGTCCTTGGAGAGGAGCAAGATGCACTGTCCAGTGTGGAGTCTGTGTCTGCTTTCTGGAGACTATCAGTACCTGCTGGCTGTCTTTCCTAGACAGGAAGCGAGGGCCTTGCTCCCTAGAGGCCACACAAAGAGCACCATCTGAGCACGTCTGCTCAGGCCCAGGCCTAGGCCAGTTCTCCCAGAGCCAACCTGTACTGTGTCTTGGGGAGAGATGTGTCTGGTGGTCCCCTGACTCTTGGGGAGATCGGAGAGGAATGCAGGCCCTTTTCTGCCCACAACAGCCAGTGACCCCCAGAGCCTTACTTCTTTCTGTGGGGTCTCTGCCACCTAACAGCAGCCCAGTACAGGGATCTACTTTTTTCCATGAGGTTGACCCATTTTCTCCTTTGAGAGATTCCATTGGCCAGAATTTCAAAGGATTTATGCGCTTGCCCAGGGGTAAAATCTCCATGAGAGAGAAGAGTTCCCTTTCTGGCACCACAGAGACCTGAAGATCTGTGTAGATGGCTGACTACACGGTGGCTCCTGGGCGCTGGCCCCAGCCGCCCTCCTTACCTGCTGACTTGTTTCCAAGCAACCTTTGGAGGTTGCTGAGGCAGCCTATTTCTGACTGTCTCCATCTCCCTGACTGCTGTCTGCACCTTTGGCACAGCCCTGCAAATCTGCCTGCGGAACTCCTATCTTATTTAAAAATTGTATTTGTGTGTGTGTACATGGGGAGGGAGGTTGTACAGGCCCATGTACACCAGTACAAGGGCCAAAGGACTATCCTGCTCAGCCACTCTGTTTTATTCATTGGCAGTAGTCTGTCTCTGAATCCAGACCTTGCCATTTTTTAGCTAGGCTGGCTGGCCAGTGAGTCCTTGTGGGCTTCCTTTGTTCCACAGTGCTGGGATTTGGGCCACACCCCAGCATTTTACAAGGTAATGGGGATCCTAACTGAAGCCCTCCTTTCTGTGCAGCAAGCACGCTTTCCCCTAAAAGATCCCTTTTAGAGGAAGCACAGAAGAAGAGAAGAGCACAGAGCAACCCTTGCCTGACCTATTCCAAGCCTTACAGGAAAATAAGTTACAAAAGCACACTGAGAATGACAGGCCAAGGACTCATTGACTCCCAAGGAAGGCCCAGGGCCTGATGGCTCCTAAGACTGGAAAGGGAGGATGACAGGGATAAAAGTCTCCATCACATCAGCCCCACACTTCTGCCAACTCAGGGTCAGTTTTTGTACCCCCCCCTTCCATATTTTCCTGGCCATAAATGTCAGCTTCCTCTTCCCAGAAAGCTGGAGGCTTACTGGGGGCAAATTGGCGTCCTCAGCCACAGGGTACAGTGTAGCCTCCTGGCTTGTATGGGTTTCACCATCCTAGATCCAGACTGGGCTCCCAGACTCCTATGTTCAAGTTCTAGCTCAGATTCTTAACTTTATGACCTCAGGCAAGTCATTTAACCTGTGTTTCCTGTCTTCTCAAGGTGGGAGTTAAAATGGAACTGGCTTCACAGGATTACCACAAAGACTAGATACTTGGCCATCCTCACCGCTCATTAGTCATGTGTTTACAGTGCATTCAGTAAATTGTTCGACCTTCACAACAATCCCATGTCTCCTTGGAGGTCACTTAGCTTGCCGCCGGTGCTGGGGGCTGCTCAAGTGTCCTAGGCAGCTCAGATGGAACCTCAGGCAGACTGACTTGAACCCTTGGCCTGCCTGATGATGCAGACCTGTGTTGCTGGCTTAATAGGCAGGACTGAGGGAAAGACAAGCGGGAACTGGTGGCCTGACCTCGGAGGCCCGACCTTGGAGGCCCTTCTG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GGCAGGACTGAGGGAAAGAC
60.04
GACACATGGCCCAGGTTTTG
59.68
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AGGCAGGACTGAGGGAAAGA
60.18
GACACATGGCCCAGGTTTTG
59.68
141
PCR template sequence:
GATGCAGACCTGTGTTGCTGGCTTAATAGGCAGGACTGAGGGAAAGACAAGCGGGAACTGGTGGCCTGACCTCGGAGGCCCGACCTTGGAGGCCCTTCTGGTGAGCACTCTTTCATATGCACATGTCCCTGTGAGTGTACACACCAGCCAAAACCTGGGCCATGTGTCCACTGGGCAGACGCCAGGGCTGCGCTGGGAAT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
35
Interacting miRNAs (#binding sites)
mmu-miR-221-3p(2), mmu-miR-218-5p(2), mmu-miR-210-3p(1), mmu-miR-32-5p(1), mmu-miR-30e-5p(1), mmu-miR-92a-3p(1), mmu-miR-211-5p(1), mmu-miR-204-5p(1), mmu-miR-146a-5p(1), mmu-miR-30a-5p(1), mmu-miR-148b-3p(1), mmu-miR-18a-5p(1), mmu-miR-298-5p(1), mmu-miR-222-3p(1), mmu-miR-709(1), mmu-miR-326-3p(1), mmu-miR-125b-5p(1), mmu-miR-25-3p(1), mmu-miR-138-5p(1), mmu-miR-339-5p(1), mmu-miR-10b-5p(1), mmu-miR-10a-5p(1), mmu-miR-381-3p(1), mmu-miR-214-3p(1), mmu-miR-24-3p(1), mmu-miR-149-5p(1), mmu-miR-351-5p(1), mmu-miR-705(1), mmu-miR-377-3p(1), mmu-miR-207(1), mmu-miR-539-5p(1), mmu-miR-532-5p(1), mmu-miR-484(1), mmu-miR-466b-3p(1), mmu-miR-296-3p(1)
siRNAs for circular RNA silencing
Junction sequence
GGAGGCCCTTCTGGTGAGCACTCTTT
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIPLEKHM1_2664_ORF_3
0.5027
-0.100546889
0.056845794
282
ORF sequence:
ATGATGCAGACCTGTGTTGCTGGCTTAATAGGCAGGACTGAGGGAAAGACAAGCGGGAACTGGTGGCCTGACCTCGGAGGCCCGACCTTGGAGGCCCTTCTGGTGAGCACTCTTTCATATGCACATGTCCCTGTGAGTGTACACACCAGCCAAAACCTGGGCCATGTGTCCACTGGGCAGACGCCAGGGCTGCGCTGGGAATGTCCCACTGGGCTGTGGGAAATCACTTCATCCTTTGAGGGTAGTTTGTGGTTTTGTTTATATGGTCATTCATTTGTTTAA
Peptide sequence:
MMQTCVAGLIGRTEGKTSGNWWPDLGGPTLEALLVSTLSYAHVPVSVHTSQNLGHVSTGQTPGLRWECPTGLWEITSSFEGSLWFCLYGHSFV
IRESfinder result
IRESfinder score
0.630983071
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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