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mmu_circKmt2c_762
Basic information of circular RNA
PanCircBase ID:
mmu_circKmt2c_762
mm39_Chr. Position ID:
chr5|25543410|25556262|-
Gene name:
Kmt2c
Transcript:
ENSMUST00000045291.14
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
5
Exon/intron indexes:
27,26,25,24,23
Exon/intron offsets:
0,6495,8948,11399,12639
Genomic length:
12852
Exon/intron sizes in nt:
16,91,31,12,01,29,213
Flanking exon/introns:
chr5:25535898-25543410|chr5:25556262-25557224
Splice length:
762
Other database IDs:
circAtlas: hsa-SCAF8_0001
Human Ortholog IDs:
Mature spliced Sequence:
ACCCCCCTAAGACCTACACCCAGGATGGTGTGTGTCTGACCGAGTCAGGGATGAGTCAGCTACAGAGCCTCACAGTCACAGCTCCCAGGAGAAAACGCACAAAACCAAAACTGAAATTGAAGATTATAAATCAGAATAGTGTGGCTGTCCTTCAGACCCCTCCAGACATCCAGTCAGAACATTCAAGAGATGGTGAAATGGATGATAGTCGAGAAGGAGAACTTATGGATTGTGATGGAAAATCTGAATCTAGTCCTGAGCGGGAAGCTGGAGATGATGAAACTAAGGGAATAGAAGGAACAGATGCCATAAAAAAGAGGAAAAGAAAACCATACAGACCAGGTATTGGTGGATTTATGGTACGACAAAGAAGTCGAACAGGACAAGGAAAAGCCAAAAGATCTGTGGTTAGAAAAGATTCTTCCGGCTCTATTTCTGAGCAGTTACCTAGCAGAGATGATGGCTGGAGGGAGCAGTTACCAGATACCCTAGTTGATGAGCCTGTTTCTGTTGCTGAGAACACTGACAAAATAAAGAAGAGATACCGAAAAAGGAAAAATAAGCTTGAAGAAACCTTTCCTGCTTATTTACAAGAAGCATTTTTTGGAAAAGATCTTCTAGATACCAGCAGACAAAACAAGCTGAGTGTAGATAATCTGTCAGAAGATGCAGCTCAGCTTTCATTTAAAACAGGTTTCTTGGATCCTTCCTCAGATCCGCTACTGAGTTCATCTTCTACTTCAGCAAAACCTGGAACTCAGG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GGATCCTTCCTCAGATCCGC
59.68
CGTTTTCTCCTGGGAGCTGT
59.96
159
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GGATCCTTCCTCAGATCCGC
59.68
CTGGGAGCTGTGACTGTGAG
60.04
150
PCR template sequence:
GAAGATGCAGCTCAGCTTTCATTTAAAACAGGTTTCTTGGATCCTTCCTCAGATCCGCTACTGAGTTCATCTTCTACTTCAGCAAAACCTGGAACTCAGGACCCCCCTAAGACCTACACCCAGGATGGTGTGTGTCTGACCGAGTCAGGGATGAGTCAGCTACAGAGCCTCACAGTCACAGCTCCCAGGAGAAAACGCAC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
5
Interacting miRNAs (#binding sites)
mmu-miR-27b-3p(1), mmu-miR-27a-3p(1), mmu-miR-320-3p(1), mmu-miR-434-5p(1), mmu-miR-484(1)
siRNAs for circular RNA silencing
Junction sequence
CCTGGAACTCAGGACCCCCCTAAGAC
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCKMT2C_762_ORF_1
1.017
0.082919091
0.999490314
1473
ORF sequence:
ATGAGTCAGCTACAGAGCCTCACAGTCACAGCTCCCAGGAGAAAACGCACAAAACCAAAACTGAAATTGAAGATTATAAATCAGAATAGTGTGGCTGTCCTTCAGACCCCTCCAGACATCCAGTCAGAACATTCAAGAGATGGTGAAATGGATGATAGTCGAGAAGGAGAACTTATGGATTGTGATGGAAAATCTGAATCTAGTCCTGAGCGGGAAGCTGGAGATGATGAAACTAAGGGAATAGAAGGAACAGATGCCATAAAAAAGAGGAAAAGAAAACCATACAGACCAGGTATTGGTGGATTTATGGTACGACAAAGAAGTCGAACAGGACAAGGAAAAGCCAAAAGATCTGTGGTTAGAAAAGATTCTTCCGGCTCTATTTCTGAGCAGTTACCTAGCAGAGATGATGGCTGGAGGGAGCAGTTACCAGATACCCTAGTTGATGAGCCTGTTTCTGTTGCTGAGAACACTGACAAAATAAAGAAGAGATACCGAAAAAGGAAAAATAAGCTTGAAGAAACCTTTCCTGCTTATTTACAAGAAGCATTTTTTGGAAAAGATCTTCTAGATACCAGCAGACAAAACAAGCTGAGTGTAGATAATCTGTCAGAAGATGCAGCTCAGCTTTCATTTAAAACAGGTTTCTTGGATCCTTCCTCAGATCCGCTACTGAGTTCATCTTCTACTTCAGCAAAACCTGGAACTCAGGACCCCCCTAAGACCTACACCCAGGATGGTGTGTGTCTGACCGAGTCAGGGATGAGTCAGCTACAGAGCCTCACAGTCACAGCTCCCAGGAGAAAACGCACAAAACCAAAACTGAAATTGAAGATTATAAATCAGAATAGTGTGGCTGTCCTTCAGACCCCTCCAGACATCCAGTCAGAACATTCAAGAGATGGTGAAATGGATGATAGTCGAGAAGGAGAACTTATGGATTGTGATGGAAAATCTGAATCTAGTCCTGAGCGGGAAGCTGGAGATGATGAAACTAAGGGAATAGAAGGAACAGATGCCATAAAAAAGAGGAAAAGAAAACCATACAGACCAGGTATTGGTGGATTTATGGTACGACAAAGAAGTCGAACAGGACAAGGAAAAGCCAAAAGATCTGTGGTTAGAAAAGATTCTTCCGGCTCTATTTCTGAGCAGTTACCTAGCAGAGATGATGGCTGGAGGGAGCAGTTACCAGATACCCTAGTTGATGAGCCTGTTTCTGTTGCTGAGAACACTGACAAAATAAAGAAGAGATACCGAAAAAGGAAAAATAAGCTTGAAGAAACCTTTCCTGCTTATTTACAAGAAGCATTTTTTGGAAAAGATCTTCTAGATACCAGCAGACAAAACAAGCTGAGTGTAGATAATCTGTCAGAAGATGCAGCTCAGCTTTCATTTAAAACAGGTTTCTTGGATCCTTCCTCAGATCCGCTACTGAGTTCATCTTCTACTTCAGCAAAACCTGGAACTCAG
Peptide sequence:
MSQLQSLTVTAPRRKRTKPKLKLKIINQNSVAVLQTPPDIQSEHSRDGEMDDSREGELMDCDGKSESSPEREAGDDETKGIEGTDAIKKRKRKPYRPGIGGFMVRQRSRTGQGKAKRSVVRKDSSGSISEQLPSRDDGWREQLPDTLVDEPVSVAENTDKIKKRYRKRKNKLEETFPAYLQEAFFGKDLLDTSRQNKLSVDNLSEDAAQLSFKTGFLDPSSDPLLSSSSTSAKPGTQDPPKTYTQDGVCLTESGMSQLQSLTVTAPRRKRTKPKLKLKIINQNSVAVLQTPPDIQSEHSRDGEMDDSREGELMDCDGKSESSPEREAGDDETKGIEGTDAIKKRKRKPYRPGIGGFMVRQRSRTGQGKAKRSVVRKDSSGSISEQLPSRDDGWREQLPDTLVDEPVSVAENTDKIKKRYRKRKNKLEETFPAYLQEAFFGKDLLDTSRQNKLSVDNLSEDAAQLSFKTGFLDPSSDPLLSSSSTSAKPGTQ
IRESfinder result
IRESfinder score
0.596335871
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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