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mmu_circAdamts17_728
Basic information of circular RNA
PanCircBase ID:
mmu_circAdamts17_728
mm39_Chr. Position ID:
chr7|66499454|66618662|+
Gene name:
Adamts17
Transcript:
ENSMUST00000148538.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
6
Exon/intron indexes:
3,4,5,6,7,8
Exon/intron offsets:
0,38594,58886,59624,66144,119102
Genomic length:
119208
Exon/intron sizes in nt:
1,66,17,08,41,58,44,100
Flanking exon/introns:
chr7:66490366-66499454|chr7:66618662-66652205
Splice length:
728
Other database IDs:
CIRCpedia: MMU_CIRCpedia_224430, circAtlas: mmu-Adamts17_0004
circAtlas: hsa-ADAMTS17_0004, CIRCpedia: HSA_CIRCpedia_113364
Human Ortholog IDs:
Mature spliced Sequence:
GTTGGCCTCATCCAGCTTGAGCAGGAGCAAGTTTTCATCCAGCCCCTCAACTCCTCAGGGGGCCCATTCATTGGAAGAGAGCATCTGATCAGACGCAAATGGGCCTCCACCCCCAGCCCTGCTACGGAGGTGGAGGGACCGAGGCAGCGCTGCAAAGTAGTGACAGAAAAGAAGCCCAGGAAGGACCATCTGTCTCGGGACTGGAGGGAAAGGAGGAATGCCATCCGGCTCACCAACGAACACACAGTGGAGACCCTGGTGGTGGCCGATGCCGACATGGTGCAGTACCACGGGGCAGAGGCTGCACAAAGATTCATCCTCACTGTCATGAACATGGTATACAACATGTTTCAGCACAGGAGCCTTGGGATTAAAATTAACATTCAAGTCACCAAGCTGGTCCTTCTGAGACAACGCCCCGCCAAGTTATCCATTGGGCACCATGGTGAGCGGTCCCTGGAGAGCTTCTGTCACTGGCAGAATGAGGAGTATGGAGGAGCACGCTACCTTGGCAATAACCAGGTGCCAGGAGGCAAGGATGATACACCTCCTGTGGATGCTGCTGTATTTGTGACCAGGACAGATTTCTGCGTTCACAAAGATGAACCTTGCGACACTGTTGGAATTGCTTACTTAGGAGGCGTGTGCAGTGCTAAGAGGAAATGTGTGCTCGCCGAAGACAATGGTCTCAATTTGGCCTTTACCATCGCACATGAACTGGGCCACAA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CGTGTGCAGTGCTAAGAGGA
60.04
GAGTTGAGGGGCTGGATGAA
59.38
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TACTTAGGAGGCGTGTGCAG
59.47
GGGGCTGGATGAAAACTTGC
59.75
144
PCR template sequence:
CTTACTTAGGAGGCGTGTGCAGTGCTAAGAGGAAATGTGTGCTCGCCGAAGACAATGGTCTCAATTTGGCCTTTACCATCGCACATGAACTGGGCCACAAGTTGGCCTCATCCAGCTTGAGCAGGAGCAAGTTTTCATCCAGCCCCTCAACTCCTCAGGGGGCCCATTCATTGGAAGAGAGCATCTGATCAGACGCAAAT
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-103-3p(1), mmu-miR-351-5p(1), mmu-miR-96-5p(1), mmu-miR-362-5p(1), mmu-miR-107-3p(1), mmu-miR-296-3p(1)
siRNAs for circular RNA silencing
Junction sequence
AACTGGGCCACAAGTTGGCCTCATCC
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCADAMTS17_728_ORF_1
0.9946
0.197369035
0.781807163
540
ORF sequence:
ATGGTGCAGTACCACGGGGCAGAGGCTGCACAAAGATTCATCCTCACTGTCATGAACATGGTATACAACATGTTTCAGCACAGGAGCCTTGGGATTAAAATTAACATTCAAGTCACCAAGCTGGTCCTTCTGAGACAACGCCCCGCCAAGTTATCCATTGGGCACCATGGTGAGCGGTCCCTGGAGAGCTTCTGTCACTGGCAGAATGAGGAGTATGGAGGAGCACGCTACCTTGGCAATAACCAGGTGCCAGGAGGCAAGGATGATACACCTCCTGTGGATGCTGCTGTATTTGTGACCAGGACAGATTTCTGCGTTCACAAAGATGAACCTTGCGACACTGTTGGAATTGCTTACTTAGGAGGCGTGTGCAGTGCTAAGAGGAAATGTGTGCTCGCCGAAGACAATGGTCTCAATTTGGCCTTTACCATCGCACATGAACTGGGCCACAAGTTGGCCTCATCCAGCTTGAGCAGGAGCAAGTTTTCATCCAGCCCCTCAACTCCTCAGGGGGCCCATTCATTGGAAGAGAGCATCTGA
Peptide sequence:
MVQYHGAEAAQRFILTVMNMVYNMFQHRSLGIKINIQVTKLVLLRQRPAKLSIGHHGERSLESFCHWQNEEYGGARYLGNNQVPGGKDDTPPVDAAVFVTRTDFCVHKDEPCDTVGIAYLGGVCSAKRKCVLAEDNGLNLAFTIAHELGHKLASSSLSRSKFSSSPSTPQGAHSLEESI
IRESfinder result
IRESfinder score
0.402968162
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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