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mmu_circKat2b_1259
Basic information of circular RNA
PanCircBase ID:
mmu_circKat2b_1259
mm39_Chr. Position ID:
chr17|53948220|53972935|+
Gene name:
Kat2b
Transcript:
ENSMUST00000000724.15
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
11
Exon/intron indexes:
7,8,9,10,11,12,13,14,15,16,17
Exon/intron offsets:
0,3421,7554,11829,13246,18125,18836,22342,24213,24460,24630
Genomic length:
24715
Exon/intron sizes in nt:
107,123,137,209,127,111,144,115,37,64,85
Flanking exon/introns:
chr17:53945571-53948220|chr17:53972935-53977702
Splice length:
1259
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTTTCTGTCCATGTTGGAAGAAGAAGTGTATAGTCAAAATTCTCCTATCTGGGATCAGGATTTTCTCTCAGCCTCTTCCAGAACCAGCCCGCTAGGAATCCAAACAGTAATCAGTCCTCCTGTTACTGGGACAGCATTGTTCAGTTCAAATTCCACTTCCCATGAGCAGATCAATGGAGGGAGAACAAGTCCTGGATGCAGAGGCTCTTCTGGGCTTGAAGCAAACCCGGGAGAAAAGAGGAAAATGAACAACTCTCATGCTCCCGAGGAGGCCAAGAGATCTCGAGTGATGGGGGATATTCCCGTGGAATTGATCAATGAGGTCATGTCTACCATCACAGACCCTGCAGGGATGCTTGGACCAGAGACCAATTTTCTGTCAGCCCATTCGGCCAGAGATGAGGCGGCACGGCTGGAAGAACGCAGGGGTGTCATTGAATTCCACGTGGTGGGCAACTCCCTGAACCAGAAACCAAACAAGAAGATCCTGATGTGGCTCGTGGGCCTCCAGAATGTGTTTTCCCACCAGCTGCCCAGAATGCCCAAAGAGTACATCACACGGCTCGTCTTTGACCCGAAACACAAAACCCTTGCTTTAATTAAAGATGGCCGTGTCATTGGTGGTATCTGTTTCCGGATGTTTCCATCCCAGGGATTCACAGAGATTGTTTTCTGTGCAGTAACCTCAAATGAACAAGTCAAGGGCTATGGAACCCACCTGATGAACCATCTCAAAGAATACCACATAAAGCACGAGATCCTCAACTTCCTCACATATGCAGATGAGTATGCCATCGGCTATTTCAAGAAGCAGGGTTTCTCCAAAGAAATCAAAATACCTAAAACCAAATATGTTGGCTACATCAAGGATTATGAAGGGGCCACTTTGATGGGATGTGAGCTGAACCCTCAGATCCCATACACAGAGTTCTCTGTCATCATTAAAAAGCAGAAGGAGATCATTAAAAAGCTGATAGAAAGAAAACAAGCCCAGATTCGAAAAGTCTACCCTGGACTTTCGTGTTTCAAAGATGGAGTTCGGCAGATTCCTATAGAAAGCATTCCTGGAATCAGAGAGACAGGCTGGAAACCAAGTGGAAAAGAGAAAAGTAAAGAGCCCAAAGACCCTGAGCAGCTTTACAGCACCCTCAAGAACATCCTGCAGCAGGTGAAGAACCATCCAAATGCTTGGCCTTTCATGGAACCAGTGAAGAGAACAGAAGCTCCGGGATATTATGAAGTTATAAGGTTCCCCATGG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GCTTGGCCTTTCATGGAACC
59.75
GATTCCTAGCGGGCTGGTTC
60.53
173
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AGAGAACAGAAGCTCCGGGA
60.25
GATTCCTAGCGGGCTGGTTC
60.53
148
PCR template sequence:
CTGCAGCAGGTGAAGAACCATCCAAATGCTTGGCCTTTCATGGAACCAGTGAAGAGAACAGAAGCTCCGGGATATTATGAAGTTATAAGGTTCCCCATGGGTTTCTGTCCATGTTGGAAGAAGAAGTGTATAGTCAAAATTCTCCTATCTGGGATCAGGATTTTCTCTCAGCCTCTTCCAGAACCAGCCCGCTAGGAATC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
7
Interacting miRNAs (#binding sites)
mmu-miR-324-5p(1), mmu-miR-136-5p(1), mmu-miR-494-3p(1), mmu-miR-425-5p(1), mmu-miR-29b-2-5p(1), mmu-miR-802-5p(1), mmu-miR-5101(1)
siRNAs for circular RNA silencing
Junction sequence
AGGTTCCCCATGGGTTTCTGTCCATG
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCKAT2B_1259_ORF_1
0.8755
0.199610315
0.998932123
1344
ORF sequence:
ATGTTGGAAGAAGAAGTGTATAGTCAAAATTCTCCTATCTGGGATCAGGATTTTCTCTCAGCCTCTTCCAGAACCAGCCCGCTAGGAATCCAAACAGTAATCAGTCCTCCTGTTACTGGGACAGCATTGTTCAGTTCAAATTCCACTTCCCATGAGCAGATCAATGGAGGGAGAACAAGTCCTGGATGCAGAGGCTCTTCTGGGCTTGAAGCAAACCCGGGAGAAAAGAGGAAAATGAACAACTCTCATGCTCCCGAGGAGGCCAAGAGATCTCGAGTGATGGGGGATATTCCCGTGGAATTGATCAATGAGGTCATGTCTACCATCACAGACCCTGCAGGGATGCTTGGACCAGAGACCAATTTTCTGTCAGCCCATTCGGCCAGAGATGAGGCGGCACGGCTGGAAGAACGCAGGGGTGTCATTGAATTCCACGTGGTGGGCAACTCCCTGAACCAGAAACCAAACAAGAAGATCCTGATGTGGCTCGTGGGCCTCCAGAATGTGTTTTCCCACCAGCTGCCCAGAATGCCCAAAGAGTACATCACACGGCTCGTCTTTGACCCGAAACACAAAACCCTTGCTTTAATTAAAGATGGCCGTGTCATTGGTGGTATCTGTTTCCGGATGTTTCCATCCCAGGGATTCACAGAGATTGTTTTCTGTGCAGTAACCTCAAATGAACAAGTCAAGGGCTATGGAACCCACCTGATGAACCATCTCAAAGAATACCACATAAAGCACGAGATCCTCAACTTCCTCACATATGCAGATGAGTATGCCATCGGCTATTTCAAGAAGCAGGGTTTCTCCAAAGAAATCAAAATACCTAAAACCAAATATGTTGGCTACATCAAGGATTATGAAGGGGCCACTTTGATGGGATGTGAGCTGAACCCTCAGATCCCATACACAGAGTTCTCTGTCATCATTAAAAAGCAGAAGGAGATCATTAAAAAGCTGATAGAAAGAAAACAAGCCCAGATTCGAAAAGTCTACCCTGGACTTTCGTGTTTCAAAGATGGAGTTCGGCAGATTCCTATAGAAAGCATTCCTGGAATCAGAGAGACAGGCTGGAAACCAAGTGGAAAAGAGAAAAGTAAAGAGCCCAAAGACCCTGAGCAGCTTTACAGCACCCTCAAGAACATCCTGCAGCAGGTGAAGAACCATCCAAATGCTTGGCCTTTCATGGAACCAGTGAAGAGAACAGAAGCTCCGGGATATTATGAAGTTATAAGGTTCCCCATGGGTTTCTGTCCATGTTGGAAGAAGAAGTGTATAGTCAAAATTCTCCTATCTGGGATCAGGATTTTCTCTCAGCCTCTTCCAGAACCAGCCCGCTAG
Peptide sequence:
MLEEEVYSQNSPIWDQDFLSASSRTSPLGIQTVISPPVTGTALFSSNSTSHEQINGGRTSPGCRGSSGLEANPGEKRKMNNSHAPEEAKRSRVMGDIPVELINEVMSTITDPAGMLGPETNFLSAHSARDEAARLEERRGVIEFHVVGNSLNQKPNKKILMWLVGLQNVFSHQLPRMPKEYITRLVFDPKHKTLALIKDGRVIGGICFRMFPSQGFTEIVFCAVTSNEQVKGYGTHLMNHLKEYHIKHEILNFLTYADEYAIGYFKKQGFSKEIKIPKTKYVGYIKDYEGATLMGCELNPQIPYTEFSVIIKKQKEIIKKLIERKQAQIRKVYPGLSCFKDGVRQIPIESIPGIRETGWKPSGKEKSKEPKDPEQLYSTLKNILQQVKNHPNAWPFMEPVKRTEAPGYYEVIRFPMGFCPCWKKKCIVKILLSGIRIFSQPLPEPAR
IRESfinder result
IRESfinder score
0.59163265
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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