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mmu_circAnkrd44_432
Basic information of circular RNA
PanCircBase ID:
mmu_circAnkrd44_432
mm39_Chr. Position ID:
chr1|54802803|54806143|-
Gene name:
Ankrd44
Transcript:
ENSMUST00000179030.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
7,6,5
Exon/intron offsets:
0,2705,3139
Genomic length:
3340
Exon/intron sizes in nt:
1,43,88,201
Flanking exon/introns:
chr1:54801632-54802803|chr1:54806143-54817445
Splice length:
432
Other database IDs:
circAtlas: mmu-Ankrd44_0014
Human Ortholog IDs:
Mature spliced Sequence:
GAGGCAGTGCAAGTATTGATTAAACACTCGGCTGATGTCAATGCAAGGGACAAGAATTGGCAGACCCCCCTCCATGTGGCAGCAGCCAATAAGGCCGTCAAGTGTGCAGAAGTGATCATTCCACTACTGAGCAGTGTCAATGTCTCCGACAGAGGCGGGCGCACAGCCTTGCACCACGCCGCTCTGAATGGACACATGGAGATGGTCAATTTACTCTTGGCCAAAGGGGCAAACATCAATGCATTTGACAAGAAGGACCGACGAGCTCTCCACTGGGCAGCATACATGGGTCACCTGGACGTTGTGGCGCTGCTCATTAACCATGGTGCAGAAGTTACCTGCAAGGATAAGAAGGGCTACACCCCGCTGCACGCTGCAGCCTCCAATGGGCAGATCAGTGTTGTCAAACATCTCCTGAACCTGGGGGTGGAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CTGCAAGGATAAGAAGGGCT
57.27
CCTTGCATTGACATCAGCCG
59.9
142
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGCAAGGATAAGAAGGGCTACA
59.16
CCTTGCATTGACATCAGCCG
59.9
141
PCR template sequence:
AGTTACCTGCAAGGATAAGAAGGGCTACACCCCGCTGCACGCTGCAGCCTCCAATGGGCAGATCAGTGTTGTCAAACATCTCCTGAACCTGGGGGTGGAGGAGGCAGTGCAAGTATTGATTAAACACTCGGCTGATGTCAATGCAAGGGACAAGAATTGGCAGACCCCCCTCCATGTGGCAGCAGCCAATAAGGCCGTCA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
3
Interacting miRNAs (#binding sites)
mmu-miR-200a-3p(1), mmu-miR-141-3p(1), mmu-miR-33-5p(1)
siRNAs for circular RNA silencing
Junction sequence
CCTGGGGGTGGAGGAGGCAGTGCAAG
siRNA sets
TTGCACTGCCTCCTCCACC,CACTGCCTCCTCCACCCCC,TGCACTGCCTCCTCCACCC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCANKRD44_432_ORF_1
1.2939
0.368062142
0.969981585
669
ORF sequence:
ATGGAGATGGTCAATTTACTCTTGGCCAAAGGGGCAAACATCAATGCATTTGACAAGAAGGACCGACGAGCTCTCCACTGGGCAGCATACATGGGTCACCTGGACGTTGTGGCGCTGCTCATTAACCATGGTGCAGAAGTTACCTGCAAGGATAAGAAGGGCTACACCCCGCTGCACGCTGCAGCCTCCAATGGGCAGATCAGTGTTGTCAAACATCTCCTGAACCTGGGGGTGGAGGAGGCAGTGCAAGTATTGATTAAACACTCGGCTGATGTCAATGCAAGGGACAAGAATTGGCAGACCCCCCTCCATGTGGCAGCAGCCAATAAGGCCGTCAAGTGTGCAGAAGTGATCATTCCACTACTGAGCAGTGTCAATGTCTCCGACAGAGGCGGGCGCACAGCCTTGCACCACGCCGCTCTGAATGGACACATGGAGATGGTCAATTTACTCTTGGCCAAAGGGGCAAACATCAATGCATTTGACAAGAAGGACCGACGAGCTCTCCACTGGGCAGCATACATGGGTCACCTGGACGTTGTGGCGCTGCTCATTAACCATGGTGCAGAAGTTACCTGCAAGGATAAGAAGGGCTACACCCCGCTGCACGCTGCAGCCTCCAATGGGCAGATCAGTGTTGTCAAACATCTCCTGAACCTGGGGGTGGAG
Peptide sequence:
MEMVNLLLAKGANINAFDKKDRRALHWAAYMGHLDVVALLINHGAEVTCKDKKGYTPLHAAASNGQISVVKHLLNLGVEEAVQVLIKHSADVNARDKNWQTPLHVAAANKAVKCAEVIIPLLSSVNVSDRGGRTALHHAALNGHMEMVNLLLAKGANINAFDKKDRRALHWAAYMGHLDVVALLINHGAEVTCKDKKGYTPLHAAASNGQISVVKHLLNLGVE
IRESfinder result
IRESfinder score
0.380930028
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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