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mmu_circAkap10_665
Basic information of circular RNA
PanCircBase ID:
mmu_circAkap10_665
mm39_Chr. Position ID:
chr11|61784205|61795685|-
Gene name:
Akap10
Transcript:
ENSMUST00000102650.10
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
5
Exon/intron indexes:
10,9,8,7,6
Exon/intron offsets:
0,3268,6930,10527,11395
Genomic length:
11480
Exon/intron sizes in nt:
174,145,137,124,85
Flanking exon/introns:
chr11:61781173-61784205|chr11:61795685-61800673
Splice length:
665
Other database IDs:
CIRCpedia: MMU_CIRCpedia_227200, circAtlas: mmu-Akap10_0026
circAtlas: hsa-AKAP10_0026, CIRCpedia: HSA_CIRCpedia_78001
Human Ortholog IDs:
Mature spliced Sequence:
CAAAGATTTGTGGAGAAGATGGACAGGTGGATCCCAACTGTTTCGTTCTGGCACAGGCTGTAGTCTTTAGTGCAATGGAGCAAGAGCACTTTAGTGAGTTTCTGCGAAGTCACCATTTCTGTAAATACCAGATTGAAGTGCTGACCAGTGGGACTGTTTACCTGGCTGATATCCTCTTCTGTGAGTCAGCCCTCTTTTATTTTTCTGAGTACATGGAAAAAGAAGATGCAGTGAATATCTTACAATTCTGGTTAGCAGCGGATAATTTCCAGTCTCAGCTTGCTGCCAAAAAGGGCCAGTATGATGGACAGGAGGCCCAGAATGATGCCATGATTTTATATGACAAGTACTTTTCCCTCCAAGCCACACACCCCCTTGGATTTGATGATGTTGTACGATTAGAAATTGAATCTAATATCTGCAGGGAAGGTGGACCACTTCCTAATTGTTTCACAACTCCATTACGTCAGGCCTGGACAACCATGGAGAAGGTCTTTTTGCCTGGTTTTCTGTCCAGCAATCTTTATTACAAATATTTGAATGATCTCATCCATTCAGTTCGAGGAGATGAATTTCTTGGAGGGAATGTTTCCCTGGCTGCTCACGGCTCTGTCTGCCTTCCTGAGGAGTCTCACTCAGGTGGTTCCGATGGCTCCACTGCTCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AATGTTTCCCTGGCTGCTCA
59.89
ACTACAGCCTGTGCCAGAAC
59.96
145
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GCTCTGTCTGCCTTCCTGAG
60.11
GTGCTCTTGCTCCATTGCAC
60.11
148
PCR template sequence:
AGATGAATTTCTTGGAGGGAATGTTTCCCTGGCTGCTCACGGCTCTGTCTGCCTTCCTGAGGAGTCTCACTCAGGTGGTTCCGATGGCTCCACTGCTCAGCAAAGATTTGTGGAGAAGATGGACAGGTGGATCCCAACTGTTTCGTTCTGGCACAGGCTGTAGTCTTTAGTGCAATGGAGCAAGAGCACTTTAGTGAGTT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
15
Interacting miRNAs (#binding sites)
mmu-miR-20b-5p(1), mmu-miR-93-5p(1), mmu-miR-20a-5p(1), mmu-miR-30e-5p(1), mmu-miR-30a-5p(1), mmu-miR-30c-5p(1), mmu-miR-328-3p(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-207(1), mmu-miR-3087-3p(1)
siRNAs for circular RNA silencing
Junction sequence
CTCCACTGCTCAGCAAAGATTTGTGG
siRNA sets
AAATCTTTGCTGAGCAGTG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCAKAP10_665_ORF_1
0.9514
0.105995392
0.838608654
654
ORF sequence:
ATGGAGCAAGAGCACTTTAGTGAGTTTCTGCGAAGTCACCATTTCTGTAAATACCAGATTGAAGTGCTGACCAGTGGGACTGTTTACCTGGCTGATATCCTCTTCTGTGAGTCAGCCCTCTTTTATTTTTCTGAGTACATGGAAAAAGAAGATGCAGTGAATATCTTACAATTCTGGTTAGCAGCGGATAATTTCCAGTCTCAGCTTGCTGCCAAAAAGGGCCAGTATGATGGACAGGAGGCCCAGAATGATGCCATGATTTTATATGACAAGTACTTTTCCCTCCAAGCCACACACCCCCTTGGATTTGATGATGTTGTACGATTAGAAATTGAATCTAATATCTGCAGGGAAGGTGGACCACTTCCTAATTGTTTCACAACTCCATTACGTCAGGCCTGGACAACCATGGAGAAGGTCTTTTTGCCTGGTTTTCTGTCCAGCAATCTTTATTACAAATATTTGAATGATCTCATCCATTCAGTTCGAGGAGATGAATTTCTTGGAGGGAATGTTTCCCTGGCTGCTCACGGCTCTGTCTGCCTTCCTGAGGAGTCTCACTCAGGTGGTTCCGATGGCTCCACTGCTCAGCAAAGATTTGTGGAGAAGATGGACAGGTGGATCCCAACTGTTTCGTTCTGGCACAGGCTGTAG
Peptide sequence:
MEQEHFSEFLRSHHFCKYQIEVLTSGTVYLADILFCESALFYFSEYMEKEDAVNILQFWLAADNFQSQLAAKKGQYDGQEAQNDAMILYDKYFSLQATHPLGFDDVVRLEIESNICREGGPLPNCFTTPLRQAWTTMEKVFLPGFLSSNLYYKYLNDLIHSVRGDEFLGGNVSLAAHGSVCLPEESHSGGSDGSTAQQRFVEKMDRWIPTVSFWHRL
IRESfinder result
IRESfinder score
0.745742454
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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