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mmu_circRttn_2846
Basic information of circular RNA
PanCircBase ID:
mmu_circRttn_2846
mm39_Chr. Position ID:
chr18|89007558|89078613|+
Gene name:
Rttn
Transcript:
ENSMUST00000023828.9
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
20
Exon/intron indexes:
10,11,12,13,14,15,16,17,18,19,20,21,22,23,24,25,26,27,28,29
Exon/intron offsets:
0,6082,19807,21417,23537,25107,25690,27744,30662,32229,37524,39457,47556,48452,52701,53424,56581,58931,64085,70926
Genomic length:
71055
Exon/intron sizes in nt:
11,61,71,21,31,13,12,70,00,00,00,00,00,00,00,00,00,00,00,00,00,00,00,00,00,00,00,000
Flanking exon/introns:
chr18:89004199-89007558|chr18:89078613-89078875
Splice length:
2846
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GCAGCAGAGAAATGATAATAAGAGTTCTGGAACTGCTTGCAGAGGACATGCTGCTCATTGGACAAGCAATTTCATCAGAAATCTGGGATGATAACAGCCTTTTTGCTATCAATGTGAAAGAGAAACTGCTCCAAGTGTTGGGGTCCCTTGGAGAAACCATGTGCTACCGTAAAACCAGTTTTAGCATGGAGCAAGCCGAGGCTGTACTCGTGCACCACAGAATGGCCTTTGTCAGCATCTCACTGTTCACAGTTCGACTGTTGCAACTTCTTCTCCCTGTTGAAAAGGCGAGTGAGTTTTTGCCAGAGTCCATGTCAGCAGCATTATTTTTTGTCTCCTTGGACATGCCTATTTCTTTGGAATATCCAGAGATTCATGACACAGTTGTGGCTTATTTGGAACAGCTGGATTCTGAAAATTACAGCATTTATAAGCGAACTGCAGAGGCTGTTTATTCAATTGAATGCACCTGTAACTTCCTATCTGATGTGGGGAAAGAGGGAGAAAAGAATCTTCTAGAATTAGTGGAGCTGGCAGACCAAGCCTTGCGTAGCTTTTCCTATCATCAGCATTCTCCCCTAATAAAGGAAATCATCTGCATCTGTTCAAAGATCTGGAAATCTGCACAGGCTAGTCCATTACTCCAGGGAGAGAGTCAGAAGGTGTTTCTCCATATGCTGTCTCACCCATTGCCACAGGTGAAGGTGGAGACTTACCAGTGCTGCCTGGAGATTGTAAAGGAATGTTTAGGTGTCCAAAATGTCACTAAACCTGTGTCTTCACTTTGTAGTGGAATTCATTTTCTGCTTCATCCAAAAGTTCTGTATGAAATCTCTGCATTTGGTATTCAAGAATCCAAAAATGAGGTGAATGCTGCTGCCAAGGCCATTCTGCTGTATCTGCTTCAGGGACGATTGATGATGACAGCTCTGACCTGGAACAAGTTTATCGAATCTCTCGCTCCTGTCATTCCAGTGCTACAGGGCTACGCTGATACAGAAGATCCCTTAGGCAACTGCATTCTCCTTCTAAGCAAAGTGAGCTCTGAGGCAGGAGAAGGCGCTCTCCCCTGCACTGCCCGGCTGAAGTCTGTGCTACGGCTTTTGCTAGTAAAAAAACCTTCGGTTCGTTCACTAGCATTAAAACTTTTAGCATTTCATCTTACCAGTGAAGAAGGGGCTGATAAAAAGCGCCCGTTCATAGATGCTGGCGTTCTCTCCAGAGTTACTAATCTGTTTATTGTGAAAAAACCTATTGACCTTAAGTTGGATGACAGAAGAGAACTAGTTATTAAGTTGGAGACTGTTAAAAAGGTGTGTGACATATTCACCTCAGACGATGTTGATCTTGTTTTAAGAAAGTCAGCTGCAGAGCAACTAGCTGTGATAATGCAAGATATTAAAATGCATACAGTGGTGAAAAAGTTATGCTTAGTTGAGAAGATTATTGGACATTTAAATGAATTTGTGGGTCAAGATGGTGAGGTTATAGAATGCTTGATTCAGCCATGCCTCACACTCCTGAGGAAGGTTTTGTACGCTGACCCGGTTATCCGTGTTTCCTTGTCACAGCAGGCCTCTCTCTTGACCCTATTACTCAGAGTTTCCTTGATATTTCATGAAGATTGTACTGTGGTGGCTGAAGTCGGGGCATTGTTTTGTCTTCTATTGTTCGATGAAGTATCAAGAATGGATACATGGTCTGATACTCTTTCTGATAAGCCTTCTTTGTCATCAGTCTTCAGTTTGCCGGTTTCAGTCTTTAGAAGGTATCATCTACCAGTTCATGTGACTGGCCACCATGCTGTGAGTCCTTACTCAATAGTTTTGCCATTACCTACTGAATGTTTGACCCTGAAGCCGGTGTCAGATATGCTGAGAATAGCTTGGAACCTGGCATGGTATCATGGGAGTGATAATCTATTGAAACAAATGACCTCTGAAGCTAAAATTCAGGAATTTTTAGATACACTGCAGCTGTCCACAGAAGATATCCTTGCACTGAAGATCACATACACGGATAGTGGGTTGAAGGACTGCCTTCAGTCCATCATTCAGGCTGGAGGCCACAGGGATGTGAGGGCTGCTATCACCAGGATGAGTTTTTATCTTTTGAATGACAAACTGTCTTTGAAGGATGATATTGGTCCATGTGGCGTTACTTTAAAATCCTTGGCTTGGCACACTGTGCTGAACAGGTTTTTACAAGTACTTCCTGCTTGCACTGAAGATGAGAAACTGCTAATAGATATCATACATTTTTTGAATAAGTTAATAAAGGAACAAAGAAAAAACCCATCAATTGAACTTTTAAACTGGATTCTGGAATTACTTCTTAGGCATAATCCAAGTCCACTACTAGACCTGCTGGTTCTGACAGATTCACATGCAGGAGAAGAAACAGATGACGTCCGGACTGCTGTCAGACAGCAACTCCAGAAAGAACTGATCAGTCTTCTCAATTCCTTGTTACTGGTTTTTATGACAGTCTCTGACAGGAAATGCTTGGAACTGTTTTACGTTTTCCAAACACAGCTGTCTCTGAAGCTACTCCAGTGCCTCAGAGTCACAGATGCTCCCCATTTCTATGGCTTACCTTCATTGGAGAGGACCTTAGCAGGGATGGCTCACCTCACTGCCTTCCCTGGGTGGAGTGCACACTCTCCTCTTTCAAAGCCACTTGAGATTTGTGGGAAGTACTTGTCCGGTCTCCTGGAGGTCATTACTTCCTTTTATGTTGAACGGGGAGGAAATGCTATGTCCTTCATGGGGAAAGGCGTTACAAAGAGCACAGGTCTTTGCTTACTTCACTTATCCCATGAGATGATAGTCCAGGCACCAGGCTCG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGTCCTTCATGGGGAAAGGC
59.96
TGCTTGTCCAATGAGCAGCA
60.54
157
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGTCCTTCATGGGGAAAGGC
59.96
TTGCTTGTCCAATGAGCAGC
59.4
158
PCR template sequence:
AGGAAATGCTATGTCCTTCATGGGGAAAGGCGTTACAAAGAGCACAGGTCTTTGCTTACTTCACTTATCCCATGAGATGATAGTCCAGGCACCAGGCTCGGCAGCAGAGAAATGATAATAAGAGTTCTGGAACTGCTTGCAGAGGACATGCTGCTCATTGGACAAGCAATTTCATCAGAAATCTGGGATGATAACAGCCT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
33
Interacting miRNAs (#binding sites)
mmu-miR-34c-5p(2), mmu-miR-152-3p(2), mmu-miR-203-3p(2), mmu-miR-130b-3p(2), mmu-miR-301b-3p(2), mmu-miR-301a-3p(2), mmu-miR-207(2), mmu-miR-673-5p(2), mmu-miR-23b-3p(1), mmu-miR-122-5p(1), mmu-miR-322-5p(1), mmu-miR-15b-5p(1), mmu-miR-30c-5p(1), mmu-miR-216a-5p(1), mmu-miR-132-3p(1), mmu-miR-23a-3p(1), mmu-miR-185-5p(1), mmu-miR-136-5p(1), mmu-miR-29b-1-5p(1), mmu-miR-212-3p(1), mmu-miR-370-3p(1), mmu-miR-541-5p(1), mmu-miR-34b-5p(1), mmu-miR-297a-5p(1), mmu-miR-29b-2-5p(1), mmu-miR-802-5p(1), mmu-miR-3087-3p(1), mmu-miR-540-3p(1), mmu-miR-670-5p(1), mmu-miR-574-5p(1), mmu-miR-339-3p(1), mmu-miR-338-3p(1), mmu-miR-181d-5p(1)
siRNAs for circular RNA silencing
Junction sequence
GGCACCAGGCTCGGCAGCAGAGAAAT
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCRTTN_2846_ORF_1
0.8519
0.01515575
0.999999951
2850
ORF sequence:
ATGATAATAAGAGTTCTGGAACTGCTTGCAGAGGACATGCTGCTCATTGGACAAGCAATTTCATCAGAAATCTGGGATGATAACAGCCTTTTTGCTATCAATGTGAAAGAGAAACTGCTCCAAGTGTTGGGGTCCCTTGGAGAAACCATGTGCTACCGTAAAACCAGTTTTAGCATGGAGCAAGCCGAGGCTGTACTCGTGCACCACAGAATGGCCTTTGTCAGCATCTCACTGTTCACAGTTCGACTGTTGCAACTTCTTCTCCCTGTTGAAAAGGCGAGTGAGTTTTTGCCAGAGTCCATGTCAGCAGCATTATTTTTTGTCTCCTTGGACATGCCTATTTCTTTGGAATATCCAGAGATTCATGACACAGTTGTGGCTTATTTGGAACAGCTGGATTCTGAAAATTACAGCATTTATAAGCGAACTGCAGAGGCTGTTTATTCAATTGAATGCACCTGTAACTTCCTATCTGATGTGGGGAAAGAGGGAGAAAAGAATCTTCTAGAATTAGTGGAGCTGGCAGACCAAGCCTTGCGTAGCTTTTCCTATCATCAGCATTCTCCCCTAATAAAGGAAATCATCTGCATCTGTTCAAAGATCTGGAAATCTGCACAGGCTAGTCCATTACTCCAGGGAGAGAGTCAGAAGGTGTTTCTCCATATGCTGTCTCACCCATTGCCACAGGTGAAGGTGGAGACTTACCAGTGCTGCCTGGAGATTGTAAAGGAATGTTTAGGTGTCCAAAATGTCACTAAACCTGTGTCTTCACTTTGTAGTGGAATTCATTTTCTGCTTCATCCAAAAGTTCTGTATGAAATCTCTGCATTTGGTATTCAAGAATCCAAAAATGAGGTGAATGCTGCTGCCAAGGCCATTCTGCTGTATCTGCTTCAGGGACGATTGATGATGACAGCTCTGACCTGGAACAAGTTTATCGAATCTCTCGCTCCTGTCATTCCAGTGCTACAGGGCTACGCTGATACAGAAGATCCCTTAGGCAACTGCATTCTCCTTCTAAGCAAAGTGAGCTCTGAGGCAGGAGAAGGCGCTCTCCCCTGCACTGCCCGGCTGAAGTCTGTGCTACGGCTTTTGCTAGTAAAAAAACCTTCGGTTCGTTCACTAGCATTAAAACTTTTAGCATTTCATCTTACCAGTGAAGAAGGGGCTGATAAAAAGCGCCCGTTCATAGATGCTGGCGTTCTCTCCAGAGTTACTAATCTGTTTATTGTGAAAAAACCTATTGACCTTAAGTTGGATGACAGAAGAGAACTAGTTATTAAGTTGGAGACTGTTAAAAAGGTGTGTGACATATTCACCTCAGACGATGTTGATCTTGTTTTAAGAAAGTCAGCTGCAGAGCAACTAGCTGTGATAATGCAAGATATTAAAATGCATACAGTGGTGAAAAAGTTATGCTTAGTTGAGAAGATTATTGGACATTTAAATGAATTTGTGGGTCAAGATGGTGAGGTTATAGAATGCTTGATTCAGCCATGCCTCACACTCCTGAGGAAGGTTTTGTACGCTGACCCGGTTATCCGTGTTTCCTTGTCACAGCAGGCCTCTCTCTTGACCCTATTACTCAGAGTTTCCTTGATATTTCATGAAGATTGTACTGTGGTGGCTGAAGTCGGGGCATTGTTTTGTCTTCTATTGTTCGATGAAGTATCAAGAATGGATACATGGTCTGATACTCTTTCTGATAAGCCTTCTTTGTCATCAGTCTTCAGTTTGCCGGTTTCAGTCTTTAGAAGGTATCATCTACCAGTTCATGTGACTGGCCACCATGCTGTGAGTCCTTACTCAATAGTTTTGCCATTACCTACTGAATGTTTGACCCTGAAGCCGGTGTCAGATATGCTGAGAATAGCTTGGAACCTGGCATGGTATCATGGGAGTGATAATCTATTGAAACAAATGACCTCTGAAGCTAAAATTCAGGAATTTTTAGATACACTGCAGCTGTCCACAGAAGATATCCTTGCACTGAAGATCACATACACGGATAGTGGGTTGAAGGACTGCCTTCAGTCCATCATTCAGGCTGGAGGCCACAGGGATGTGAGGGCTGCTATCACCAGGATGAGTTTTTATCTTTTGAATGACAAACTGTCTTTGAAGGATGATATTGGTCCATGTGGCGTTACTTTAAAATCCTTGGCTTGGCACACTGTGCTGAACAGGTTTTTACAAGTACTTCCTGCTTGCACTGAAGATGAGAAACTGCTAATAGATATCATACATTTTTTGAATAAGTTAATAAAGGAACAAAGAAAAAACCCATCAATTGAACTTTTAAACTGGATTCTGGAATTACTTCTTAGGCATAATCCAAGTCCACTACTAGACCTGCTGGTTCTGACAGATTCACATGCAGGAGAAGAAACAGATGACGTCCGGACTGCTGTCAGACAGCAACTCCAGAAAGAACTGATCAGTCTTCTCAATTCCTTGTTACTGGTTTTTATGACAGTCTCTGACAGGAAATGCTTGGAACTGTTTTACGTTTTCCAAACACAGCTGTCTCTGAAGCTACTCCAGTGCCTCAGAGTCACAGATGCTCCCCATTTCTATGGCTTACCTTCATTGGAGAGGACCTTAGCAGGGATGGCTCACCTCACTGCCTTCCCTGGGTGGAGTGCACACTCTCCTCTTTCAAAGCCACTTGAGATTTGTGGGAAGTACTTGTCCGGTCTCCTGGAGGTCATTACTTCCTTTTATGTTGAACGGGGAGGAAATGCTATGTCCTTCATGGGGAAAGGCGTTACAAAGAGCACAGGTCTTTGCTTACTTCACTTATCCCATGAGATGATAGTCCAGGCACCAGGCTCGGCAGCAGAGAAATGA
Peptide sequence:
MIIRVLELLAEDMLLIGQAISSEIWDDNSLFAINVKEKLLQVLGSLGETMCYRKTSFSMEQAEAVLVHHRMAFVSISLFTVRLLQLLLPVEKASEFLPESMSAALFFVSLDMPISLEYPEIHDTVVAYLEQLDSENYSIYKRTAEAVYSIECTCNFLSDVGKEGEKNLLELVELADQALRSFSYHQHSPLIKEIICICSKIWKSAQASPLLQGESQKVFLHMLSHPLPQVKVETYQCCLEIVKECLGVQNVTKPVSSLCSGIHFLLHPKVLYEISAFGIQESKNEVNAAAKAILLYLLQGRLMMTALTWNKFIESLAPVIPVLQGYADTEDPLGNCILLLSKVSSEAGEGALPCTARLKSVLRLLLVKKPSVRSLALKLLAFHLTSEEGADKKRPFIDAGVLSRVTNLFIVKKPIDLKLDDRRELVIKLETVKKVCDIFTSDDVDLVLRKSAAEQLAVIMQDIKMHTVVKKLCLVEKIIGHLNEFVGQDGEVIECLIQPCLTLLRKVLYADPVIRVSLSQQASLLTLLLRVSLIFHEDCTVVAEVGALFCLLLFDEVSRMDTWSDTLSDKPSLSSVFSLPVSVFRRYHLPVHVTGHHAVSPYSIVLPLPTECLTLKPVSDMLRIAWNLAWYHGSDNLLKQMTSEAKIQEFLDTLQLSTEDILALKITYTDSGLKDCLQSIIQAGGHRDVRAAITRMSFYLLNDKLSLKDDIGPCGVTLKSLAWHTVLNRFLQVLPACTEDEKLLIDIIHFLNKLIKEQRKNPSIELLNWILELLLRHNPSPLLDLLVLTDSHAGEETDDVRTAVRQQLQKELISLLNSLLLVFMTVSDRKCLELFYVFQTQLSLKLLQCLRVTDAPHFYGLPSLERTLAGMAHLTAFPGWSAHSPLSKPLEICGKYLSGLLEVITSFYVERGGNAMSFMGKGVTKSTGLCLLHLSHEMIVQAPGSAAEK
IRESfinder result
IRESfinder score
0.735096629
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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