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mmu_circAkap10_874
Basic information of circular RNA
PanCircBase ID:
mmu_circAkap10_874
mm39_Chr. Position ID:
chr11|61781063|61800772|-
Gene name:
Akap10
Transcript:
ENSMUST00000102650.10
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
7
Exon/intron indexes:
11,10,9,8,7,6,5
Exon/intron offsets:
0,3142,6410,10072,13669,14537,19610
Genomic length:
19709
Exon/intron sizes in nt:
110,174,145,137,124,85,99
Flanking exon/introns:
chr11:61777608-61781063|chr11:61800772-61805849
Splice length:
874
Other database IDs:
circBase: mmu_circ_0003194, CIRCpedia: MMU_CIRCpedia_216318, circAtlas: mmu-Akap10_0005
circAtlas: hsa-AKAP10_0008
Human Ortholog IDs:
Mature spliced Sequence:
GTATAGAACAAGATGCAGTGAATACTTTTACCAAATATATATCTCCAGATGCTGCTAAGCCAATACCAATTACAGAAGCCATGAGAAACGACATCATCGCAAAGATTTGTGGAGAAGATGGACAGGTGGATCCCAACTGTTTCGTTCTGGCACAGGCTGTAGTCTTTAGTGCAATGGAGCAAGAGCACTTTAGTGAGTTTCTGCGAAGTCACCATTTCTGTAAATACCAGATTGAAGTGCTGACCAGTGGGACTGTTTACCTGGCTGATATCCTCTTCTGTGAGTCAGCCCTCTTTTATTTTTCTGAGTACATGGAAAAAGAAGATGCAGTGAATATCTTACAATTCTGGTTAGCAGCGGATAATTTCCAGTCTCAGCTTGCTGCCAAAAAGGGCCAGTATGATGGACAGGAGGCCCAGAATGATGCCATGATTTTATATGACAAGTACTTTTCCCTCCAAGCCACACACCCCCTTGGATTTGATGATGTTGTACGATTAGAAATTGAATCTAATATCTGCAGGGAAGGTGGACCACTTCCTAATTGTTTCACAACTCCATTACGTCAGGCCTGGACAACCATGGAGAAGGTCTTTTTGCCTGGTTTTCTGTCCAGCAATCTTTATTACAAATATTTGAATGATCTCATCCATTCAGTTCGAGGAGATGAATTTCTTGGAGGGAATGTTTCCCTGGCTGCTCACGGCTCTGTCTGCCTTCCTGAGGAGTCTCACTCAGGTGGTTCCGATGGCTCCACTGCTCAGTCTAGTGTGAAAAAAGCCAGTATTAAAATTCTGAAAAATTTTGATGAAGCAATAATTGTGGATGCTGCAAGTCTGGACCCAGAATCTTTATATCAACGGACATATGCAGG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGGATGCTGCAAGTCTGGAC
60.32
CGATGATGTCGTTTCTCATGGC
60.03
151
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GTGGATGCTGCAAGTCTGGA
60.32
CGATGATGTCGTTTCTCATGGC
60.03
152
PCR template sequence:
AAAAAGCCAGTATTAAAATTCTGAAAAATTTTGATGAAGCAATAATTGTGGATGCTGCAAGTCTGGACCCAGAATCTTTATATCAACGGACATATGCAGGGTATAGAACAAGATGCAGTGAATACTTTTACCAAATATATATCTCCAGATGCTGCTAAGCCAATACCAATTACAGAAGCCATGAGAAACGACATCATCGC
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-20b-5p(1), mmu-miR-16-5p(1), mmu-miR-93-5p(1), mmu-miR-20a-5p(1), mmu-miR-103-3p(1), mmu-miR-135a-5p(1), mmu-miR-30e-5p(1), mmu-miR-30a-5p(1), mmu-miR-30c-5p(1), mmu-miR-328-3p(1), mmu-miR-217-5p(1), mmu-miR-25-3p(1), mmu-miR-30d-5p(1), mmu-miR-214-3p(1), mmu-miR-30b-5p(1), mmu-miR-136-5p(1), mmu-miR-212-3p(1), mmu-miR-107-3p(1), mmu-miR-207(1), mmu-miR-3087-3p(1)
siRNAs for circular RNA silencing
Junction sequence
GGACATATGCAGGGTATAGAACAAGA
siRNA sets
TCTATACCCTGCATATGTC, TTCTATACCCTGCATATGT, TCTTGTTCTATACCCTGCA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCAKAP10_874_ORF_1
0.951
0.119109121
0.973859408
921
ORF sequence:
ATGCTGCAAGTCTGGACCCAGAATCTTTATATCAACGGACATATGCAGGGTATAGAACAAGATGCAGTGAATACTTTTACCAAATATATATCTCCAGATGCTGCTAAGCCAATACCAATTACAGAAGCCATGAGAAACGACATCATCGCAAAGATTTGTGGAGAAGATGGACAGGTGGATCCCAACTGTTTCGTTCTGGCACAGGCTGTAGTCTTTAGTGCAATGGAGCAAGAGCACTTTAGTGAGTTTCTGCGAAGTCACCATTTCTGTAAATACCAGATTGAAGTGCTGACCAGTGGGACTGTTTACCTGGCTGATATCCTCTTCTGTGAGTCAGCCCTCTTTTATTTTTCTGAGTACATGGAAAAAGAAGATGCAGTGAATATCTTACAATTCTGGTTAGCAGCGGATAATTTCCAGTCTCAGCTTGCTGCCAAAAAGGGCCAGTATGATGGACAGGAGGCCCAGAATGATGCCATGATTTTATATGACAAGTACTTTTCCCTCCAAGCCACACACCCCCTTGGATTTGATGATGTTGTACGATTAGAAATTGAATCTAATATCTGCAGGGAAGGTGGACCACTTCCTAATTGTTTCACAACTCCATTACGTCAGGCCTGGACAACCATGGAGAAGGTCTTTTTGCCTGGTTTTCTGTCCAGCAATCTTTATTACAAATATTTGAATGATCTCATCCATTCAGTTCGAGGAGATGAATTTCTTGGAGGGAATGTTTCCCTGGCTGCTCACGGCTCTGTCTGCCTTCCTGAGGAGTCTCACTCAGGTGGTTCCGATGGCTCCACTGCTCAGTCTAGTGTGAAAAAAGCCAGTATTAAAATTCTGAAAAATTTTGATGAAGCAATAATTGTGGATGCTGCAAGTCTGGACCCAGAATCTTTATATCAACGGACATATGCA
Peptide sequence:
MLQVWTQNLYINGHMQGIEQDAVNTFTKYISPDAAKPIPITEAMRNDIIAKICGEDGQVDPNCFVLAQAVVFSAMEQEHFSEFLRSHHFCKYQIEVLTSGTVYLADILFCESALFYFSEYMEKEDAVNILQFWLAADNFQSQLAAKKGQYDGQEAQNDAMILYDKYFSLQATHPLGFDDVVRLEIESNICREGGPLPNCFTTPLRQAWTTMEKVFLPGFLSSNLYYKYLNDLIHSVRGDEFLGGNVSLAAHGSVCLPEESHSGGSDGSTAQSSVKKASIKILKNFDEAIIVDAASLDPESLYQRTYA
IRESfinder result
IRESfinder score
0.689066369
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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