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mmu_circRbm27_1247
Basic information of circular RNA
PanCircBase ID:
mmu_circRbm27_1247
mm39_Chr. Position ID:
chr18|42450665|42466462|+
Gene name:
Rbm27
Transcript:
ENSMUST00000046972.14
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
9
Exon/intron indexes:
10,11,12,13,14,15,16,17,18
Exon/intron offsets:
0,2201,3163,6454,8304,9563,9753,15179,15608
Genomic length:
15797
Exon/intron sizes in nt:
1,50,14,51,54,14,41,20,00,00,00,00,000
Flanking exon/introns:
chr18:42447200-42450665|chr18:42466462-42470027
Splice length:
1247
Other database IDs:
circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_50709
Human Ortholog IDs:
Mature spliced Sequence:
ATACATATGAACCAGATGGCTATAATCCTGAAGCACCTAGCATCACCAGTTCTGGTAGATCACAGTACAGACAGTTCTTCTCAAGAGCACAGACACAGCGTCCCAACCTGATTGGCCTCACATCTGGAGATATGGATGCAAATCCAAGAGCTGCTAATATTGTCATCCAGACTGAACCACCAGTTCCTGTTTCAGTTAATAGCAACGTCACCAGAGTAGTCCTGGAACCAGAGAGCCGAAAGAGAGCTATTAGTGGTTTGGAGGGGCCACTTACAAAGAAGCCTTGGCTGGGAAAACAAGGGAACAACAATCAAAGTAAACCAGGCTTCCTGAGGAAGAATCATTATACAAACACCAAACTAGAGGTGAAAAAAATCCCCCAGGAATTGAACAACATTACCAAGCTCAACGAACACTTCAGCAAATTTGGAACCATAGTTAATATCCAGATGATGGGCAAACCACAGACCTCTGGTGCCTATGTTCTTAACAAAGTCCCTGTTAAACACCGTCTTGGACATGCAAGTACTAACCAGAGTGACACGTCTCACTTGCTAAATCAGACTGGTGGTTCTTCTGGGGAAGATTGTCCGGTATTTTCTACTCCAGGCCATCCAAAAACAATTTACAGCTCTTCAAACTTAAAGGCACCTTCAAAACTTTGTTCAGGGTCTAAATCTCATGATGTTCAAGAAGTTCTTAAGAAGAAACAGGAAGCAATGAAGTTACAGCAAGACATGAGGAAAAAGAAACAAGAAATGTTGGAAAAGCAGATAGAATGCCAGAAGATGCTGATTTCTAAACTAGAAAAGAACAAAAACATGAAACCAGAAGAAAGAGCAAATATAATGAAGACCTTGAAAGAACTGGGAGAGAAGATCTCACAATTGAAAGATGAATTAAAAACATCTTCTACAGTCTCCACACCGTCCAAAGTAAAGACAAAAACAGAGGCCCAGAAGGAGTTGTTGGACACAGAGTTGGACCTCCACAAGAGGCTCTCTTCAGGAGAAGATACAACAGAATTACGTAAAAAGCTCAGTCAGTTACAAGTTGAGGCTGCAAGATTAGGTATTTTACCTGTGGGGAGAGGAAAGACCATATCCTCTCAAGGCCGAGGAAGAGGCAGGGGTCGAGGAAGAGGGAGGGGCTCACTGAATCACATGGTGGTGGATCACCGCCCCAAAGCTCTCCCAGGTGGAGGATTCATTGAGGAGGAAAAAGATGAGTTGCTTCAGCATTTCTCA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CCAAAGCTCTCCCAGGTGG
60
CGCTGTGTCTGTGCTCTTGA
60.6
165
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CCCAAAGCTCTCCCAGGTG
60
CGCTGTGTCTGTGCTCTTGA
60.6
166
PCR template sequence:
GGGCTCACTGAATCACATGGTGGTGGATCACCGCCCCAAAGCTCTCCCAGGTGGAGGATTCATTGAGGAGGAAAAAGATGAGTTGCTTCAGCATTTCTCAATACATATGAACCAGATGGCTATAATCCTGAAGCACCTAGCATCACCAGTTCTGGTAGATCACAGTACAGACAGTTCTTCTCAAGAGCACAGACACAGCG
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-29b-1-5p(2), mmu-miR-18a-5p(1), mmu-miR-431-5p(1), mmu-miR-207(1)
siRNAs for circular RNA silencing
Junction sequence
TCAGCATTTCTCAATACATATGAACC
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCRBM27_1247_ORF_1
0.7705
0.080345367
0.995103747
1227
ORF sequence:
ATGGATGCAAATCCAAGAGCTGCTAATATTGTCATCCAGACTGAACCACCAGTTCCTGTTTCAGTTAATAGCAACGTCACCAGAGTAGTCCTGGAACCAGAGAGCCGAAAGAGAGCTATTAGTGGTTTGGAGGGGCCACTTACAAAGAAGCCTTGGCTGGGAAAACAAGGGAACAACAATCAAAGTAAACCAGGCTTCCTGAGGAAGAATCATTATACAAACACCAAACTAGAGGTGAAAAAAATCCCCCAGGAATTGAACAACATTACCAAGCTCAACGAACACTTCAGCAAATTTGGAACCATAGTTAATATCCAGATGATGGGCAAACCACAGACCTCTGGTGCCTATGTTCTTAACAAAGTCCCTGTTAAACACCGTCTTGGACATGCAAGTACTAACCAGAGTGACACGTCTCACTTGCTAAATCAGACTGGTGGTTCTTCTGGGGAAGATTGTCCGGTATTTTCTACTCCAGGCCATCCAAAAACAATTTACAGCTCTTCAAACTTAAAGGCACCTTCAAAACTTTGTTCAGGGTCTAAATCTCATGATGTTCAAGAAGTTCTTAAGAAGAAACAGGAAGCAATGAAGTTACAGCAAGACATGAGGAAAAAGAAACAAGAAATGTTGGAAAAGCAGATAGAATGCCAGAAGATGCTGATTTCTAAACTAGAAAAGAACAAAAACATGAAACCAGAAGAAAGAGCAAATATAATGAAGACCTTGAAAGAACTGGGAGAGAAGATCTCACAATTGAAAGATGAATTAAAAACATCTTCTACAGTCTCCACACCGTCCAAAGTAAAGACAAAAACAGAGGCCCAGAAGGAGTTGTTGGACACAGAGTTGGACCTCCACAAGAGGCTCTCTTCAGGAGAAGATACAACAGAATTACGTAAAAAGCTCAGTCAGTTACAAGTTGAGGCTGCAAGATTAGGTATTTTACCTGTGGGGAGAGGAAAGACCATATCCTCTCAAGGCCGAGGAAGAGGCAGGGGTCGAGGAAGAGGGAGGGGCTCACTGAATCACATGGTGGTGGATCACCGCCCCAAAGCTCTCCCAGGTGGAGGATTCATTGAGGAGGAAAAAGATGAGTTGCTTCAGCATTTCTCAATACATATGAACCAGATGGCTATAATCCTGAAGCACCTAGCATCACCAGTTCTGGTAGATCACAGTACAGACAGTTCTTCTCAAGAGCACAGACACAGCGTCCCAACCTGA
Peptide sequence:
MDANPRAANIVIQTEPPVPVSVNSNVTRVVLEPESRKRAISGLEGPLTKKPWLGKQGNNNQSKPGFLRKNHYTNTKLEVKKIPQELNNITKLNEHFSKFGTIVNIQMMGKPQTSGAYVLNKVPVKHRLGHASTNQSDTSHLLNQTGGSSGEDCPVFSTPGHPKTIYSSSNLKAPSKLCSGSKSHDVQEVLKKKQEAMKLQQDMRKKKQEMLEKQIECQKMLISKLEKNKNMKPEERANIMKTLKELGEKISQLKDELKTSSTVSTPSKVKTKTEAQKELLDTELDLHKRLSSGEDTTELRKKLSQLQVEAARLGILPVGRGKTISSQGRGRGRGRGRGRGSLNHMVVDHRPKALPGGGFIEEEKDELLQHFSIHMNQMAIILKHLASPVLVDHSTDSSSQEHRHSVPT
IRESfinder result
IRESfinder score
0.604603237
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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