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mmu_circKlhl24_1663
Basic information of circular RNA
PanCircBase ID:
mmu_circKlhl24_1663
mm39_Chr. Position ID:
chr16|19925412|19939048|+
Gene name:
Klhl24
Transcript:
ENSMUST00000023509.5
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
5
Exon/intron indexes:
3,4,5,6,7
Exon/intron offsets:
0,7898,9221,11205,13447
Genomic length:
13636
Exon/intron sizes in nt:
98,11,85,11,91,89,189
Flanking exon/introns:
chr16:19920804-19925412|chr16:19939048-19941655
Splice length:
1663
Other database IDs:
CIRCpedia: MMU_CIRCpedia_12838, circAtlas: mmu-Klhl24_0002
circBase: hsa_circ_0006667, circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_44621
Human Ortholog IDs:
Mature spliced Sequence:
TTACATAAAGAAGATCCCTAGGAGCCATTTCTCAGCAATTATATAGTCAACTGATGTAACAATGGTACTAATATTGGGACGCAGATTAAACAGAGAGGATCTTGGGGTGCGTGATTCCCCAGCAACTAAGCGTAAAGTTTTTGAAATGGACCCCAAATCTCTGACAGGTCATGAGTATTTTGACTTCTCTTCAGGATCATCCCATGCTGAAAACATCCTCCAGATATTTAATGAGTTCCGAGACAGCCGCTTATTCACAGATGTCATTATCTGTGTGGAAGGAAAAGAATTCCCATGCCATCGAGCTGTCCTCTCAGCCTGCAGCAGCTACTTCAGAGCCATGTTCTGTAACGACCACAGGGAGAGCCGAGAAATGCTGGTTGAGATCAATGGCATTTTAGCTGAAGCTATGGAATGCTTTCTGCAGTATGTGTATACTGGGAAGGTGAAGATCACAACAGAGAATGTCCAGTACCTCTTCGAAACCTCCAGCCTCTTTCAGATTAGTGTTCTCCGTGATGCTTGTGCCAAGTTCTTAGAGGAACAGCTTGATCCTTGCAATTGCCTAGGAATCCAGCGCTTTGCCGACACCCACTCGCTCAAAACACTCTTCACAAAATGCAAGACCTTTGCATTACAGACTTTTGAGGATGTGTCCCAGCATGAAGAATTTCTCGAGCTTGACAAAGATGAACTTATTGATTATATCTGCAGTGATGAACTTGTTATTGGTAAAGAGGAGATGGTTTTTGAGGCCGTCATGCGCTGGGTCTACCGGGCGGTTGATCTGCGAAGACCACTGTTACATGAGCTCCTGACGCACGTCAGGCTTCCTCTCTTGCATCCCAACTACTTTGTTCAGACAGTTGAAGTGGACCAGTTGATCCAGAATTCCCCCGAGTGTTATCAGTTGCTGCACGAAGCAAGGCGGTACCACATACTTGGCAATGAAATGATGTCCCCAAGGACTAGGCCACGCAGGTCTACTGGCTATTCAGAGGTGATAGTTGTGGTTGGAGGCTGTGAACGAGTTGGAGGATTTAATCTTCCATACACTGAGTGCTATGATCCAGTAACAGGAGAATGGAAGTCCTTGGCCAAGCTTCCAGAATTTACCAAATCCGAGTATGCAGTCTGTGCACTGAGGAATGATATTCTTGTTTCAGGTGGAAGAATCAACAGCCGTGATGTCTGGATTTATAATTCACAGTTAAATATCTGGATCAGAGTTGCTTCTCTAAATAAAGGCAGATGGCGTCACAAAATGGCTGTCCTTCTTGGTAAAGTGTATGTTGTTGGCGGCTATGATGGGCAAAACAGGCTTAGCAGTGTGGAGTGTTACGATTCCTTTTCAAATCGTTGGACGGAAGTTGCTCCACTTAAGGAAGCAGTGAGCTCTCCTGCAGTGACAAGCTGTATAGGAAAATTGTTTGTGATTGGTGGAGGACCTGATGATAATACTTGTTCTGATAAGGTCCAATCTTATGACCCAGAAACCAATTCTTGGCTACTTCGTGCAGCTATCCCTATCGCCAAGAGGTGCATCACAGCTGTCTCTTTAAACAACCTGATCTACGTAGCTGGTGGGCTGACCAAGGCAGTGTATTGTTACGATCCCGTTGAAGACTACTGGATGCATGTACAAAACACATTCAGCCGGCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GATCTACGTAGCTGGTGGGC
59.97
TCTGCGTCCCAATATTAGTACCA
59.04
179
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GCTGACCAAGGCAGTGTATTG
59.53
TCTCTGTTTAATCTGCGTCCCA
59.43
172
PCR template sequence:
CAACCTGATCTACGTAGCTGGTGGGCTGACCAAGGCAGTGTATTGTTACGATCCCGTTGAAGACTACTGGATGCATGTACAAAACACATTCAGCCGGCAGTTACATAAAGAAGATCCCTAGGAGCCATTTCTCAGCAATTATATAGTCAACTGATGTAACAATGGTACTAATATTGGGACGCAGATTAAACAGAGAGGAT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
11
Interacting miRNAs (#binding sites)
mmu-miR-539-5p(2), mmu-miR-152-3p(1), mmu-miR-411-3p(1), mmu-miR-96-5p(1), mmu-miR-199b-3p(1), mmu-miR-199a-3p(1), mmu-miR-384-3p(1), mmu-miR-802-5p(1), mmu-miR-300-3p(1), mmu-miR-673-5p(1), mmu-miR-7a-2-3p(1)
siRNAs for circular RNA silencing
Junction sequence
ATTCAGCCGGCAGTTACATAAAGAAG
siRNA sets
CTTCTTTATGTAACTGCCG, TTCTTTATGTAACTGCCGG, TTTATGTAACTGCCGGCTG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCKLHL24_1663_ORF_1
0.8377
0.1331572
0.999795247
1623
ORF sequence:
ATGGTACTAATATTGGGACGCAGATTAAACAGAGAGGATCTTGGGGTGCGTGATTCCCCAGCAACTAAGCGTAAAGTTTTTGAAATGGACCCCAAATCTCTGACAGGTCATGAGTATTTTGACTTCTCTTCAGGATCATCCCATGCTGAAAACATCCTCCAGATATTTAATGAGTTCCGAGACAGCCGCTTATTCACAGATGTCATTATCTGTGTGGAAGGAAAAGAATTCCCATGCCATCGAGCTGTCCTCTCAGCCTGCAGCAGCTACTTCAGAGCCATGTTCTGTAACGACCACAGGGAGAGCCGAGAAATGCTGGTTGAGATCAATGGCATTTTAGCTGAAGCTATGGAATGCTTTCTGCAGTATGTGTATACTGGGAAGGTGAAGATCACAACAGAGAATGTCCAGTACCTCTTCGAAACCTCCAGCCTCTTTCAGATTAGTGTTCTCCGTGATGCTTGTGCCAAGTTCTTAGAGGAACAGCTTGATCCTTGCAATTGCCTAGGAATCCAGCGCTTTGCCGACACCCACTCGCTCAAAACACTCTTCACAAAATGCAAGACCTTTGCATTACAGACTTTTGAGGATGTGTCCCAGCATGAAGAATTTCTCGAGCTTGACAAAGATGAACTTATTGATTATATCTGCAGTGATGAACTTGTTATTGGTAAAGAGGAGATGGTTTTTGAGGCCGTCATGCGCTGGGTCTACCGGGCGGTTGATCTGCGAAGACCACTGTTACATGAGCTCCTGACGCACGTCAGGCTTCCTCTCTTGCATCCCAACTACTTTGTTCAGACAGTTGAAGTGGACCAGTTGATCCAGAATTCCCCCGAGTGTTATCAGTTGCTGCACGAAGCAAGGCGGTACCACATACTTGGCAATGAAATGATGTCCCCAAGGACTAGGCCACGCAGGTCTACTGGCTATTCAGAGGTGATAGTTGTGGTTGGAGGCTGTGAACGAGTTGGAGGATTTAATCTTCCATACACTGAGTGCTATGATCCAGTAACAGGAGAATGGAAGTCCTTGGCCAAGCTTCCAGAATTTACCAAATCCGAGTATGCAGTCTGTGCACTGAGGAATGATATTCTTGTTTCAGGTGGAAGAATCAACAGCCGTGATGTCTGGATTTATAATTCACAGTTAAATATCTGGATCAGAGTTGCTTCTCTAAATAAAGGCAGATGGCGTCACAAAATGGCTGTCCTTCTTGGTAAAGTGTATGTTGTTGGCGGCTATGATGGGCAAAACAGGCTTAGCAGTGTGGAGTGTTACGATTCCTTTTCAAATCGTTGGACGGAAGTTGCTCCACTTAAGGAAGCAGTGAGCTCTCCTGCAGTGACAAGCTGTATAGGAAAATTGTTTGTGATTGGTGGAGGACCTGATGATAATACTTGTTCTGATAAGGTCCAATCTTATGACCCAGAAACCAATTCTTGGCTACTTCGTGCAGCTATCCCTATCGCCAAGAGGTGCATCACAGCTGTCTCTTTAAACAACCTGATCTACGTAGCTGGTGGGCTGACCAAGGCAGTGTATTGTTACGATCCCGTTGAAGACTACTGGATGCATGTACAAAACACATTCAGCCGGCAGTTACATAAAGAAGATCCCTAG
Peptide sequence:
MVLILGRRLNREDLGVRDSPATKRKVFEMDPKSLTGHEYFDFSSGSSHAENILQIFNEFRDSRLFTDVIICVEGKEFPCHRAVLSACSSYFRAMFCNDHRESREMLVEINGILAEAMECFLQYVYTGKVKITTENVQYLFETSSLFQISVLRDACAKFLEEQLDPCNCLGIQRFADTHSLKTLFTKCKTFALQTFEDVSQHEEFLELDKDELIDYICSDELVIGKEEMVFEAVMRWVYRAVDLRRPLLHELLTHVRLPLLHPNYFVQTVEVDQLIQNSPECYQLLHEARRYHILGNEMMSPRTRPRRSTGYSEVIVVVGGCERVGGFNLPYTECYDPVTGEWKSLAKLPEFTKSEYAVCALRNDILVSGGRINSRDVWIYNSQLNIWIRVASLNKGRWRHKMAVLLGKVYVVGGYDGQNRLSSVECYDSFSNRWTEVAPLKEAVSSPAVTSCIGKLFVIGGGPDDNTCSDKVQSYDPETNSWLLRAAIPIAKRCITAVSLNNLIYVAGGLTKAVYCYDPVEDYWMHVQNTFSRQLHKEDP
IRESfinder result
IRESfinder score
0.62446499
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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