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mmu_circDnaaf9_839
Basic information of circular RNA
PanCircBase ID:
mmu_circDnaaf9_839
mm39_Chr. Position ID:
chr2|130606372|130633907|-
Gene name:
Dnaaf9
Transcript:
ENSMUST00000044766.15
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
11
Exon/intron indexes:
20,19,18,17,16,15,14,13,12,11,10
Exon/intron offsets:
0,1235,3157,6219,10606,11274,12752,13964,19971,21006,27399
Genomic length:
27535
Exon/intron sizes in nt:
8,85,17,11,18,46,45,77,00,00,00,000
Flanking exon/introns:
chr2:130590708-130606372|chr2:130633907-130635908
Splice length:
839
Other database IDs:
CIRCpedia: MMU_CIRCpedia_216849, circAtlas: mmu-4930402H24Rik_0014
circAtlas: hsa-SCAF8_0001
Human Ortholog IDs:
Mature spliced Sequence:
CCCTCATCGGCAGCCTTTTGTTCTCTTTGGCAACCACTCCACACGGGACAACCTGAGCGCTGGCAGCTTTAACTTCCCTTCTGAAGGGCACCTGGTGCGCAACACTGGTCCTGCAGGGAGCTTTGCCAAACACATGGTCGCTCAGTGTGTCTCACCAAAGGGACCTCTGGCCTGTTCAAGAACATACTTTTTTGGAGCTACTCATGTTCCTTATTTGGGTGACAACGAGAAGCTGCCCAGGACCACGGAGCAAATTAGGCTCTTATCCCAGATATATGCTGCTGTTATTGAGGCTGTTTTGGCTGGCATTGCATGTTATGCTAAAACTTGCAGTCTGGCAAAGGCCAAGGAAGTAGCAGAGCACACTCTGGAGTCTGGGTTAGTGTTCACTGAGTTGGTTCCATTCAAAGCAGATCTACGCTCCAAGGTGACTTTTCATATACATGCTGTGAATAACCAGGGAAGAATTGTGCCTCTGAATAATGAAGATAGCTTATCCTTTGTGAAAACGGCTCGTATGACCGTCTATGACATTCCTGACCTGCTGGGAGGAGGAGGAGGAGGATGCTTAGGGTCTGTGGTCTTCTCAGAGTCGTTTTTGACATCTCGGATCTTGGTTAAAGAAAAAGATGGCACTATTACCCCAGAGACCAGCTACATCATCCTGACAGCTGCCATCCCCAGATTCTGTTCCTGGCTGGTAGAAGATAGTGAAATAAAATTGTCTGAGAAAACCCTGCAAGCAACAAAGGGGGACGACTGTTGCTTGGGCACTTTGCTAACAGGAGGAAAGGGAGCGTATCTTTATTCCAACAGTCCACAGTCCGGGCCTGAGGAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CAACAAAGGGGGACGACTGT
60.18
GTGTGGAGTGGTTGCCAAAG
59.61
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ACAAAGGGGGACGACTGTTG
60.18
GGGAAGTTAAAGCTGCCAGC
59.47
172
PCR template sequence:
CAAGCAACAAAGGGGGACGACTGTTGCTTGGGCACTTTGCTAACAGGAGGAAAGGGAGCGTATCTTTATTCCAACAGTCCACAGTCCGGGCCTGAGGAAGCCCTCATCGGCAGCCTTTTGTTCTCTTTGGCAACCACTCCACACGGGACAACCTGAGCGCTGGCAGCTTTAACTTCCCTTCTGAAGGGCACCTGGTGCGC
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-15a-5p(1), mmu-miR-106a-5p(1), mmu-miR-20a-5p(1), mmu-miR-17-5p(1), mmu-miR-1a-3p(1), mmu-miR-199a-5p(1), mmu-miR-103-3p(1), mmu-miR-211-5p(1), mmu-miR-204-5p(1), mmu-miR-15b-5p(1), mmu-miR-106b-5p(1), mmu-miR-132-3p(1), mmu-miR-22-3p(1), mmu-miR-212-3p(1), mmu-miR-511-3p(1), mmu-miR-107-3p(1), mmu-miR-1198-5p(1), mmu-miR-207(1)
siRNAs for circular RNA silencing
Junction sequence
GGGCCTGAGGAAGCCCTCATCGGCAG
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCDNAAF9_839_ORF_1
0.8294
0.079581535
0.889364293
762
ORF sequence:
ATGGTCGCTCAGTGTGTCTCACCAAAGGGACCTCTGGCCTGTTCAAGAACATACTTTTTTGGAGCTACTCATGTTCCTTATTTGGGTGACAACGAGAAGCTGCCCAGGACCACGGAGCAAATTAGGCTCTTATCCCAGATATATGCTGCTGTTATTGAGGCTGTTTTGGCTGGCATTGCATGTTATGCTAAAACTTGCAGTCTGGCAAAGGCCAAGGAAGTAGCAGAGCACACTCTGGAGTCTGGGTTAGTGTTCACTGAGTTGGTTCCATTCAAAGCAGATCTACGCTCCAAGGTGACTTTTCATATACATGCTGTGAATAACCAGGGAAGAATTGTGCCTCTGAATAATGAAGATAGCTTATCCTTTGTGAAAACGGCTCGTATGACCGTCTATGACATTCCTGACCTGCTGGGAGGAGGAGGAGGAGGATGCTTAGGGTCTGTGGTCTTCTCAGAGTCGTTTTTGACATCTCGGATCTTGGTTAAAGAAAAAGATGGCACTATTACCCCAGAGACCAGCTACATCATCCTGACAGCTGCCATCCCCAGATTCTGTTCCTGGCTGGTAGAAGATAGTGAAATAAAATTGTCTGAGAAAACCCTGCAAGCAACAAAGGGGGACGACTGTTGCTTGGGCACTTTGCTAACAGGAGGAAAGGGAGCGTATCTTTATTCCAACAGTCCACAGTCCGGGCCTGAGGAAGCCCTCATCGGCAGCCTTTTGTTCTCTTTGGCAACCACTCCACACGGGACAACCTGA
Peptide sequence:
MVAQCVSPKGPLACSRTYFFGATHVPYLGDNEKLPRTTEQIRLLSQIYAAVIEAVLAGIACYAKTCSLAKAKEVAEHTLESGLVFTELVPFKADLRSKVTFHIHAVNNQGRIVPLNNEDSLSFVKTARMTVYDIPDLLGGGGGGCLGSVVFSESFLTSRILVKEKDGTITPETSYIILTAAIPRFCSWLVEDSEIKLSEKTLQATKGDDCCLGTLLTGGKGAYLYSNSPQSGPEEALIGSLLFSLATTPHGTT
IRESfinder result
IRESfinder score
0.609782921
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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