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mmu_circNnt_1016
Basic information of circular RNA
PanCircBase ID:
mmu_circNnt_1016
mm39_Chr. Position ID:
chr13|119518211|119541290|-
Gene name:
Nnt
Transcript:
ENSMUST00000069902.13
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
6
Exon/intron indexes:
7,6,5,4,3,2
Exon/intron offsets:
0,4903,7518,12935,15071,22876
Genomic length:
23079
Exon/intron sizes in nt:
188,89,88,218,230,203
Flanking exon/introns:
chr13:119506681-119518211|chr13:119541290-119545438
Splice length:
1016
Other database IDs:
CIRCpedia: MMU_CIRCpedia_4732, circAtlas: mmu-Nnt_0013
circBase: hsa_circ_0008671, circAtlas: hsa-NNT_0019, CIRCpedia: HSA_CIRCpedia_51868
Human Ortholog IDs:
Mature spliced Sequence:
TAATCCACCTTCAAGGAATTGGGGATCCGAAACGTTGGGAGCATAAAGCAGCATGGCGCACCTACTGAAGACGGTGGTGGCTGGCTGTTCATGTCCTTTCCTTAGCAACTTGGGGTCCTCTAAGGTTCTACCTGGGAAGAGAGACTTTGTACGAACGCTTCGTACTCACCAGGCACTGTGGTGTAAATCCCCGGTAAAGCCAGGAATTCCATATAAGCAGTTGACAGTTGGGGTCCCCAAGGAGATTTTCCAAAACGAGAAGCGAGTTGCATTGTCTCCTGCGGGGGTCCAGGCCCTGGTCAAGCAGGGCTTCAATGTTGTCGTGGAATCAGGCGCAGGCGAAGCTTCCAAGTTCCCAGATGACCTCTACAGAGCAGCAGGGGCCCAGATCCAAGGGATGAAGGAAGTTCTGGCTTCTGATCTGGTGGTCAAAGTGAGGGCCCCCATGGTGAACCCGACGTTAGGCGCTCACGAAGCTGACTTTTTAAAGCCATCAGGAACTCTAATTAGCTTCATCTACCCAGCCCAAAATCCAGACTTGCTCAATAAACTTTCTGAAAGAAAAACCACAGTTCTGGCGATGGACCAGGTTCCAAGAGTGACAATAGCTCAGGGCTATGATGCTCTCAGTTCCATGGCCAACATCTCTGGTTATAAGGCTGTTGTTTTAGCAGCGAATCATTTTGGGAGGTTTTTCACTGGGCAGATCACAGCTGCTGGAAAAGTTCCCCCTGCGAAGATCCTGATAGTTGGTGGTGGCGTTGCTGGGCTCGCTTCTGCGGGGGCAGCAAAGTCGATGGGCGCAGTTGTCCGAGGATTTGATACAAGAGCTGCTGCTTTGGAACAGTTCAAATCCCTTGGTGCTGAACCCTTGGAGGTTGACTTGAAGGAATCTGGTGAGGGCCAAGGAGGATACGCGAAAGAGATGTCCAAAGAGTTCATTGAAGCTGAAATGAAGCTCTTTGCTCAACAGTGCAAGGAGGTGGACATCCTTATCAGCACAGCTCTGATTCCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CAGTGCAAGGAGGTGGACAT
59.96
AAGGACATGAACAGCCAGCC
60.61
144
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AACAGTGCAAGGAGGTGGAC
60.18
AAGGACATGAACAGCCAGCC
60.61
146
PCR template sequence:
GCGAAAGAGATGTCCAAAGAGTTCATTGAAGCTGAAATGAAGCTCTTTGCTCAACAGTGCAAGGAGGTGGACATCCTTATCAGCACAGCTCTGATTCCAGTAATCCACCTTCAAGGAATTGGGGATCCGAAACGTTGGGAGCATAAAGCAGCATGGCGCACCTACTGAAGACGGTGGTGGCTGGCTGTTCATGTCCTTTC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
10
Interacting miRNAs (#binding sites)
mmu-miR-205-5p(1), mmu-miR-322-5p(1), mmu-miR-15b-5p(1), mmu-miR-328-3p(1), mmu-miR-326-3p(1), mmu-miR-127-5p(1), mmu-miR-541-5p(1), mmu-miR-383-5p(1), mmu-miR-325-3p(1), mmu-miR-339-3p(1)
siRNAs for circular RNA silencing
Junction sequence
GCTCTGATTCCAGTAATCCACCTTCA
siRNA sets
AAGGTGGATTACTGGAATC, GGATTACTGGAATCAGAGC, TGGATTACTGGAATCAGAG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCNNT_1016_ORF_1
1.0631
0.195670263
0.99285131
1032
ORF sequence:
ATGGCGCACCTACTGAAGACGGTGGTGGCTGGCTGTTCATGTCCTTTCCTTAGCAACTTGGGGTCCTCTAAGGTTCTACCTGGGAAGAGAGACTTTGTACGAACGCTTCGTACTCACCAGGCACTGTGGTGTAAATCCCCGGTAAAGCCAGGAATTCCATATAAGCAGTTGACAGTTGGGGTCCCCAAGGAGATTTTCCAAAACGAGAAGCGAGTTGCATTGTCTCCTGCGGGGGTCCAGGCCCTGGTCAAGCAGGGCTTCAATGTTGTCGTGGAATCAGGCGCAGGCGAAGCTTCCAAGTTCCCAGATGACCTCTACAGAGCAGCAGGGGCCCAGATCCAAGGGATGAAGGAAGTTCTGGCTTCTGATCTGGTGGTCAAAGTGAGGGCCCCCATGGTGAACCCGACGTTAGGCGCTCACGAAGCTGACTTTTTAAAGCCATCAGGAACTCTAATTAGCTTCATCTACCCAGCCCAAAATCCAGACTTGCTCAATAAACTTTCTGAAAGAAAAACCACAGTTCTGGCGATGGACCAGGTTCCAAGAGTGACAATAGCTCAGGGCTATGATGCTCTCAGTTCCATGGCCAACATCTCTGGTTATAAGGCTGTTGTTTTAGCAGCGAATCATTTTGGGAGGTTTTTCACTGGGCAGATCACAGCTGCTGGAAAAGTTCCCCCTGCGAAGATCCTGATAGTTGGTGGTGGCGTTGCTGGGCTCGCTTCTGCGGGGGCAGCAAAGTCGATGGGCGCAGTTGTCCGAGGATTTGATACAAGAGCTGCTGCTTTGGAACAGTTCAAATCCCTTGGTGCTGAACCCTTGGAGGTTGACTTGAAGGAATCTGGTGAGGGCCAAGGAGGATACGCGAAAGAGATGTCCAAAGAGTTCATTGAAGCTGAAATGAAGCTCTTTGCTCAACAGTGCAAGGAGGTGGACATCCTTATCAGCACAGCTCTGATTCCAGTAATCCACCTTCAAGGAATTGGGGATCCGAAACGTTGGGAGCATAAAGCAGCATGGCGCACCTACTGA
Peptide sequence:
MAHLLKTVVAGCSCPFLSNLGSSKVLPGKRDFVRTLRTHQALWCKSPVKPGIPYKQLTVGVPKEIFQNEKRVALSPAGVQALVKQGFNVVVESGAGEASKFPDDLYRAAGAQIQGMKEVLASDLVVKVRAPMVNPTLGAHEADFLKPSGTLISFIYPAQNPDLLNKLSERKTTVLAMDQVPRVTIAQGYDALSSMANISGYKAVVLAANHFGRFFTGQITAAGKVPPAKILIVGGGVAGLASAGAAKSMGAVVRGFDTRAAALEQFKSLGAEPLEVDLKESGEGQGGYAKEMSKEFIEAEMKLFAQQCKEVDILISTALIPVIHLQGIGDPKRWEHKAAWRTY
IRESfinder result
IRESfinder score
0.413203755
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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