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mmu_circDnaaf9_706
Basic information of circular RNA
PanCircBase ID:
mmu_circDnaaf9_706
mm39_Chr. Position ID:
chr2|130640086|130664420|-
Gene name:
Dnaaf9
Transcript:
ENSMUST00000044766.15
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
7
Exon/intron indexes:
8,7,6,5,4,3,2
Exon/intron offsets:
0,8704,12655,14678,16012,22302,24254
Genomic length:
24334
Exon/intron sizes in nt:
99,78,107,97,125,120,80
Flanking exon/introns:
chr2:130635964-130640086|chr2:130664420-130681883
Splice length:
706
Other database IDs:
CIRCpedia: MMU_CIRCpedia_7609, circAtlas: mmu-4930402H24Rik_0008
circBase: hsa_circ_0115006, circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_133384
Human Ortholog IDs:
Mature spliced Sequence:
CTGCAGCCGACTCCGCCAGGTTCAAAGTGTCCTGACCCAGAGCAGCAAGTCTCAACCTGATGGGATCCTCTGCATCCTCGGAATTGACAGCAGGTACAATGAAGGCTGTAGAGAGCTGGCAAATTACCTGCTTTTTGGTTTGTACAGTCAGAATGCCACTGATTTTGAGAAAACGGGATTTTCTGAAGAAATTCTAGATGACGTGATTTTATTGATTAAATCAGATAGTGTCCATCTGTACTGTAATCCCGTCAACTACCGCTATCTTTTGCCTTACGTGGCACACTGGAGAAACCTGCATTTCCATTGCATGACGGAAAATGAGTATGAAGATGAGGAAGCAGCAGAAGAATTTAAGATTTCCAGCTTTGTGGACATGGTTCGAGACTGTAGTAGGATTGGTATTCCTTATAGCTCCCAAGGTCACTTACAGATATTTGATATGTTTGTGGTAGAGAAGTGGCCAATTGTCCAGGCCTTTGCACTTGAAGGCATTGGAGGAGATGGATTTTTTACCATGAAATATGAGTTGCAGGACGTGAGTCTGAGTCTGTGGAATGTCTACAGCAGGATGGACCCTGCGTCTCTGGAGAACATGCTTTCAGAAGACCTGGCGGTGTTTGAGCATCAGTGGACGAGCTTCTTTGCTAACTTTGATACAGAAATCCCTTTCCTGCTGGAACTTTCTGAATCTCAGGCGGGTGAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GCATCAGTGGACGAGCTTCT
60.11
ACCTGCTGTCAATTCCGAGG
60.04
177
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AGCATCAGTGGACGAGCTTC
60.11
ACCTGCTGTCAATTCCGAGG
60.04
178
PCR template sequence:
AGACCTGGCGGTGTTTGAGCATCAGTGGACGAGCTTCTTTGCTAACTTTGATACAGAAATCCCTTTCCTGCTGGAACTTTCTGAATCTCAGGCGGGTGAGCTGCAGCCGACTCCGCCAGGTTCAAAGTGTCCTGACCCAGAGCAGCAAGTCTCAACCTGATGGGATCCTCTGCATCCTCGGAATTGACAGCAGGTACAAT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
12
Interacting miRNAs (#binding sites)
mmu-miR-19b-3p(1), mmu-miR-101a-3p(1), mmu-miR-205-5p(1), mmu-miR-19a-3p(1), mmu-miR-101b-3p(1), mmu-miR-132-3p(1), mmu-miR-139-5p(1), mmu-miR-301b-3p(1), mmu-miR-541-5p(1), mmu-miR-301a-3p(1), mmu-miR-532-5p(1), mmu-miR-490-3p(1)
siRNAs for circular RNA silencing
Junction sequence
TCAGGCGGGTGAGCTGCAGCCGACTC
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCDNAAF9_706_ORF_1
0.829
0.151251987
0.95494971
855
ORF sequence:
ATGTCTACAGCAGGATGGACCCTGCGTCTCTGGAGAACATGCTTTCAGAAGACCTGGCGGTGTTTGAGCATCAGTGGACGAGCTTCTTTGCTAACTTTGATACAGAAATCCCTTTCCTGCTGGAACTTTCTGAATCTCAGGCGGGTGAGCTGCAGCCGACTCCGCCAGGTTCAAAGTGTCCTGACCCAGAGCAGCAAGTCTCAACCTGATGGGATCCTCTGCATCCTCGGAATTGACAGCAGGTACAATGAAGGCTGTAGAGAGCTGGCAAATTACCTGCTTTTTGGTTTGTACAGTCAGAATGCCACTGATTTTGAGAAAACGGGATTTTCTGAAGAAATTCTAGATGACGTGATTTTATTGATTAAATCAGATAGTGTCCATCTGTACTGTAATCCCGTCAACTACCGCTATCTTTTGCCTTACGTGGCACACTGGAGAAACCTGCATTTCCATTGCATGACGGAAAATGAGTATGAAGATGAGGAAGCAGCAGAAGAATTTAAGATTTCCAGCTTTGTGGACATGGTTCGAGACTGTAGTAGGATTGGTATTCCTTATAGCTCCCAAGGTCACTTACAGATATTTGATATGTTTGTGGTAGAGAAGTGGCCAATTGTCCAGGCCTTTGCACTTGAAGGCATTGGAGGAGATGGATTTTTTACCATGAAATATGAGTTGCAGGACGTGAGTCTGAGTCTGTGGAATGTCTACAGCAGGATGGACCCTGCGTCTCTGGAGAACATGCTTTCAGAAGACCTGGCGGTGTTTGAGCATCAGTGGACGAGCTTCTTTGCTAACTTTGATACAGAAATCCCTTTCCTGCTGGAACTTTCTGAATCTCAGGCGGGTGAG
Peptide sequence:
MSTAGWTLRLWRTCFQKTWRCLSISGRASLLTLIQKSLSCWNFLNLRRVSCSRLRQVQSVLTQSSKSQPDGILCILGIDSRYNEGCRELANYLLFGLYSQNATDFEKTGFSEEILDDVILLIKSDSVHLYCNPVNYRYLLPYVAHWRNLHFHCMTENEYEDEEAAEEFKISSFVDMVRDCSRIGIPYSSQGHLQIFDMFVVEKWPIVQAFALEGIGGDGFFTMKYELQDVSLSLWNVYSRMDPASLENMLSEDLAVFEHQWTSFFANFDTEIPFLLELSESQAGE
IRESfinder result
IRESfinder score
0.692266494
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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