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mmu_circAdam17_345
Basic information of circular RNA
PanCircBase ID:
mmu_circAdam17_345
mm39_Chr. Position ID:
chr12|21379054|21382211|-
Gene name:
Adam17
Transcript:
ENSMUST00000101551.10
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
17,16,15
Exon/intron offsets:
0,979,3022
Genomic length:
3157
Exon/intron sizes in nt:
79,131,135
Flanking exon/introns:
chr12:21378134-21379054|chr12:21382211-21382570
Splice length:
345
Other database IDs:
CIRCpedia: MMU_CIRCpedia_13208, circAtlas: mmu-Adam17_0001
circAtlas: hsa-ADAM17_0006
Human Ortholog IDs:
Mature spliced Sequence:
GGAATAGCAGTGAGTGCCCCCCACCCGGAGATGCTGAAGATGACACTGTGTGCTTGGACCTTGGCAAGTGCAAGGCTGGGAAATGCATCCCTTTCTGCAAGAGGGAGCAGGAGCTGGAGTCCTGCGCATGCGTTGACACTGACAACTCGTGCAAGGTGTGCTGCAGGAACCTTTCTGGCCCGTGTGTGCCGTACGTCGATGCAGAGCAAAAGAACTTGTTTTTGAGGAAAGGGAAGCCATGTACAGTAGGGTTTTGCGACATGAATGGCAAATGTGAGAAACGAGTACAGGACGTAATTGAGCGATTTTGGGATTTCATTGACCAGCTGAGCATCAACACTTTTG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GGTTTTGCGACATGAATGGCA
60.34
AGGTCCAAGCACACAGTGTC
60.18
157
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GGTTTTGCGACATGAATGGC
58.65
AGGTCCAAGCACACAGTGTC
60.18
157
PCR template sequence:
GTAGGGTTTTGCGACATGAATGGCAAATGTGAGAAACGAGTACAGGACGTAATTGAGCGATTTTGGGATTTCATTGACCAGCTGAGCATCAACACTTTTGGGAATAGCAGTGAGTGCCCCCCACCCGGAGATGCTGAAGATGACACTGTGTGCTTGGACCTTGGCAAGTGCAAGGCTGGGAAATGCATCCCTTTCTGCAA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
6
Interacting miRNAs (#binding sites)
mmu-miR-23b-3p(1), mmu-miR-135a-5p(1), mmu-miR-23a-3p(1), mmu-miR-25-3p(1), mmu-miR-676-3p(1), mmu-miR-1904(1)
siRNAs for circular RNA silencing
Junction sequence
ATCAACACTTTTGGGAATAGCAGTGA
siRNA sets
TATTCCCAAAAGTGTTGAT, ACTGCTATTCCCAAAAGTG, CTATTCCCAAAAGTGTTGA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCADAM17_345_ORF_1
0.7642
0.259071164
0.578568746
429
ORF sequence:
ATGAATGGCAAATGTGAGAAACGAGTACAGGACGTAATTGAGCGATTTTGGGATTTCATTGACCAGCTGAGCATCAACACTTTTGGGAATAGCAGTGAGTGCCCCCCACCCGGAGATGCTGAAGATGACACTGTGTGCTTGGACCTTGGCAAGTGCAAGGCTGGGAAATGCATCCCTTTCTGCAAGAGGGAGCAGGAGCTGGAGTCCTGCGCATGCGTTGACACTGACAACTCGTGCAAGGTGTGCTGCAGGAACCTTTCTGGCCCGTGTGTGCCGTACGTCGATGCAGAGCAAAAGAACTTGTTTTTGAGGAAAGGGAAGCCATGTACAGTAGGGTTTTGCGACATGAATGGCAAATGTGAGAAACGAGTACAGGACGTAATTGAGCGATTTTGGGATTTCATTGACCAGCTGAGCATCAACACTTTT
Peptide sequence:
MNGKCEKRVQDVIERFWDFIDQLSINTFGNSSECPPPGDAEDDTVCLDLGKCKAGKCIPFCKREQELESCACVDTDNSCKVCCRNLSGPCVPYVDAEQKNLFLRKGKPCTVGFCDMNGKCEKRVQDVIERFWDFIDQLSINTF
IRESfinder result
IRESfinder score
0.351436148
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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