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mmu_circProm1_1349
Basic information of circular RNA
PanCircBase ID:
mmu_circProm1_1349
mm39_Chr. Position ID:
chr5|44168536|44194983|-
Gene name:
Prom1
Transcript:
ENSMUST00000074113.13
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
12
Exon/intron indexes:
20,19,18,17,16,15,14,13,12,11,10,9
Exon/intron offsets:
0,1681,2901,3563,5371,7098,9613,15488,18415,21749,23152,26229
Genomic length:
26447
Exon/intron sizes in nt:
5,49,37,21,47,85,10,41,00,00,00,00,00,00,000
Flanking exon/introns:
chr5:44164445-44168536|chr5:44194983-44201658
Splice length:
1349
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
CCATCAAACAGACCAAGGATGCCCTGCAGAACATGAGCAGCAGCCTGAAAAGTCTCCAAGATGCAGCCACCCAGCTCAATACCAACCTGAGCTCTGTGAGAAACAGCATCGAGAATTCGCTCAGCAGCAGTGACTGTACCTCAGATCCAGCCAGCAAGATCTGCGATAGCATCAGACCAAGCCTAAGCAGTCTGGGGAGCAGCCTCAATTCAAGTCAGCTCCCATCAGTGGATAGAGAACTCAACACTGTTACTGAAGTCGACAAAACTGATCTGGAGAGCCTCGTCAAAAGGGGGTATACGACAATTGATGAAATACCCAATACAATACAAAACCAAACTGTGGATGTCATCAAAGACGTCAAAAATACCTTGGACTCCATTAGCTCCAACATTAAGGACATGAGCCAAAGTATTCCTATTGAGGATATGCTGTTACAGGTCTCCCATTACCTTAATAACAGCAACAGATACTTAAACCAGGAGCTGCCCAAGCTGGAAGAATATGACTCGTACTGGTGGCTGGGTGGCTTGATTGTCTGCTTTCTGCTGACTCTCATTGTGACCTTCTTTTTCCTGGGCTTGCTGTGTGGTGTGTTTGGCTATGACAAGCATGCCACCCCAACTAGAAGAGGCTGTGTGTCCAACACTGGAGGCATCTTCCTCATGGCTGGGGTTGGATTCGGCTTCCTTTTTTGCTGGATATTGATGATCCTTGTGGTTCTTACGTTTGTTGTTGGTGCAAATGTGGAAAAGTTGCTCTGCGAACCTTATGAAAACAAGAAATTATTACAGGTTTTGGACACTCCCTATCTGCTCAAGGAACAATGGCAATTTTATCTTTCTGGCATGCTATTCAATAACCCAGACATTAACATGACCTTTGAGCAAGTCTACAGGGATTGCAAAAGAGGTCGAGGTATATATGCTGCTTTTCAGCTTGAGAATGTCGTCAACGTCAGTGATCATTTCAACATTGACCAGATTTCTGAAAACATAAATACGGAGTTGGAAAACCTGAATGTGAACATTGATAGCATTGAACTGTTGGATAACACAGGAAGGAAGAGCCTCGAGGACTTTGCACATTCTGGGATAGATACAATCGATTATTCCACATACTTGAAGGAGACTGAGAAATCCCCTACTGAAGTGAATCTGCTGACATTTGCCTCTACCCTGGAAGCAAAAGCAAACCAGTTGCCTGAAGGAAAGCTGAAACAGGCCTTCTTACTGGATGTACAGAATATAAGAGCCATCCACCAGCATCTCCTCCCTCCTGTGCAGCAATCACTGAATACGTTAAGACAAAGTGTCTGGACCCTCCAGCAAACAAGCAACAAGTTGCCG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AAGAGCCATCCACCAGCATC
60.11
GTGGCTGCATCTTGGAGACT
60.04
170
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CATCCACCAGCATCTCCTCC
59.89
GTGGCTGCATCTTGGAGACT
60.04
164
PCR template sequence:
AAGAGCCATCCACCAGCATCTCCTCCCTCCTGTGCAGCAATCACTGAATACGTTAAGACAAAGTGTCTGGACCCTCCAGCAAACAAGCAACAAGTTGCCGCCATCAAACAGACCAAGGATGCCCTGCAGAACATGAGCAGCAGCCTGAAAAGTCTCCAAGATGCAGCCACCCAGCTCAATACCAACCTGAGCTCTGTGAG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
20
Interacting miRNAs (#binding sites)
mmu-miR-23b-3p(1), mmu-miR-16-5p(1), mmu-miR-15a-5p(1), mmu-miR-199a-5p(1), mmu-miR-103-3p(1), mmu-miR-135a-5p(1), mmu-miR-322-5p(1), mmu-miR-15b-5p(1), mmu-miR-18a-5p(1), mmu-miR-203-3p(1), mmu-miR-23a-3p(1), mmu-miR-495-3p(1), mmu-miR-214-3p(1), mmu-miR-29b-1-5p(1), mmu-miR-194-5p(1), mmu-miR-107-3p(1), mmu-miR-5101(1), mmu-miR-532-5p(1), mmu-miR-3105-3p(1), mmu-miR-181d-5p(1)
siRNAs for circular RNA silencing
Junction sequence
CAACAAGTTGCCGCCATCAAACAGAC
siRNA sets
TTTGATGGCGGCAACTTGT, GTTTGATGGCGGCAACTTG, TTGATGGCGGCAACTTGTT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCPROM1_1349_ORF_1
1.0518
0.171275764
0.99918685
1353
ORF sequence:
ATGAGCAGCAGCCTGAAAAGTCTCCAAGATGCAGCCACCCAGCTCAATACCAACCTGAGCTCTGTGAGAAACAGCATCGAGAATTCGCTCAGCAGCAGTGACTGTACCTCAGATCCAGCCAGCAAGATCTGCGATAGCATCAGACCAAGCCTAAGCAGTCTGGGGAGCAGCCTCAATTCAAGTCAGCTCCCATCAGTGGATAGAGAACTCAACACTGTTACTGAAGTCGACAAAACTGATCTGGAGAGCCTCGTCAAAAGGGGGTATACGACAATTGATGAAATACCCAATACAATACAAAACCAAACTGTGGATGTCATCAAAGACGTCAAAAATACCTTGGACTCCATTAGCTCCAACATTAAGGACATGAGCCAAAGTATTCCTATTGAGGATATGCTGTTACAGGTCTCCCATTACCTTAATAACAGCAACAGATACTTAAACCAGGAGCTGCCCAAGCTGGAAGAATATGACTCGTACTGGTGGCTGGGTGGCTTGATTGTCTGCTTTCTGCTGACTCTCATTGTGACCTTCTTTTTCCTGGGCTTGCTGTGTGGTGTGTTTGGCTATGACAAGCATGCCACCCCAACTAGAAGAGGCTGTGTGTCCAACACTGGAGGCATCTTCCTCATGGCTGGGGTTGGATTCGGCTTCCTTTTTTGCTGGATATTGATGATCCTTGTGGTTCTTACGTTTGTTGTTGGTGCAAATGTGGAAAAGTTGCTCTGCGAACCTTATGAAAACAAGAAATTATTACAGGTTTTGGACACTCCCTATCTGCTCAAGGAACAATGGCAATTTTATCTTTCTGGCATGCTATTCAATAACCCAGACATTAACATGACCTTTGAGCAAGTCTACAGGGATTGCAAAAGAGGTCGAGGTATATATGCTGCTTTTCAGCTTGAGAATGTCGTCAACGTCAGTGATCATTTCAACATTGACCAGATTTCTGAAAACATAAATACGGAGTTGGAAAACCTGAATGTGAACATTGATAGCATTGAACTGTTGGATAACACAGGAAGGAAGAGCCTCGAGGACTTTGCACATTCTGGGATAGATACAATCGATTATTCCACATACTTGAAGGAGACTGAGAAATCCCCTACTGAAGTGAATCTGCTGACATTTGCCTCTACCCTGGAAGCAAAAGCAAACCAGTTGCCTGAAGGAAAGCTGAAACAGGCCTTCTTACTGGATGTACAGAATATAAGAGCCATCCACCAGCATCTCCTCCCTCCTGTGCAGCAATCACTGAATACGTTAAGACAAAGTGTCTGGACCCTCCAGCAAACAAGCAACAAGTTGCCGCCATCAAACAGACCAAGGATGCCCTGCAGAACATGA
Peptide sequence:
MSSSLKSLQDAATQLNTNLSSVRNSIENSLSSSDCTSDPASKICDSIRPSLSSLGSSLNSSQLPSVDRELNTVTEVDKTDLESLVKRGYTTIDEIPNTIQNQTVDVIKDVKNTLDSISSNIKDMSQSIPIEDMLLQVSHYLNNSNRYLNQELPKLEEYDSYWWLGGLIVCFLLTLIVTFFFLGLLCGVFGYDKHATPTRRGCVSNTGGIFLMAGVGFGFLFCWILMILVVLTFVVGANVEKLLCEPYENKKLLQVLDTPYLLKEQWQFYLSGMLFNNPDINMTFEQVYRDCKRGRGIYAAFQLENVVNVSDHFNIDQISENINTELENLNVNIDSIELLDNTGRKSLEDFAHSGIDTIDYSTYLKETEKSPTEVNLLTFASTLEAKANQLPEGKLKQAFLLDVQNIRAIHQHLLPPVQQSLNTLRQSVWTLQQTSNKLPPSNRPRMPCRT
IRESfinder result
IRESfinder score
0.581218314
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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