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mmu_circCcdc141_485
Basic information of circular RNA
PanCircBase ID:
mmu_circCcdc141_485
mm39_Chr. Position ID:
chr2|76905179|76938823|-
Gene name:
Ccdc141
Transcript:
ENSMUST00000049544.14
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
8,7,6
Exon/intron offsets:
0,14234,33527
Genomic length:
33644
Exon/intron sizes in nt:
17,31,95,117
Flanking exon/introns:
chr2:76890025-76905179|chr2:76938823-76954465
Splice length:
485
Other database IDs:
CIRCpedia: MMU_CIRCpedia_216842, circAtlas: mmu-Ccdc141_0001
circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_150681
Human Ortholog IDs:
Mature spliced Sequence:
GTTTCTTCTTGGTTTCAGAAAGCAATAAGAGATCTGCAGGAACAGAGTCTGGGCGCATCACTTTCAGACAACAGAGAGCTAATCTGCAAGCACGAGGACCTGATAGTCAAAGCAAAGGAATGGGATTCGGCCGTAGAGAAGCTGAAAAGCCAGGCTTTGGGGATTCTATTGTCCAAGGACTTGGCAGGAAAGGAACATCTACAGCTCTCTAACCAGAAACTGAATCGGCTTCAAGAAGAATTTGGAAGACTCATGGTGGAAAGGAAAGCCTGGTTATCGATGGCAAATGACTTTTTTACCAGTGCTAACAAGTCATTTGATGTACTTGGGAAAGTTGAAGCTTACCTTAAGCTCCTTAAATCAGAGGGTTTAAGCCTGCCTGTCTTGGCAGCGAAGCATGAGGAATTACACAGAGAAATTAAAGACTCTACAGCCACTGCTCTGCAAAAGGGACGAACCTTAATCAGCCAAGTAGACTCCTGCCG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGCTCTGCAAAAGGGACGAA
60.18
CCTCGTGCTTGCAGATTAGC
59.35
145
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGCTCTGCAAAAGGGACGAA
60.18
GGTCCTCGTGCTTGCAGATT
60.67
148
PCR template sequence:
TGGCAGCGAAGCATGAGGAATTACACAGAGAAATTAAAGACTCTACAGCCACTGCTCTGCAAAAGGGACGAACCTTAATCAGCCAAGTAGACTCCTGCCGGTTTCTTCTTGGTTTCAGAAAGCAATAAGAGATCTGCAGGAACAGAGTCTGGGCGCATCACTTTCAGACAACAGAGAGCTAATCTGCAAGCACGAGGACC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
1
Interacting miRNAs (#binding sites)
mmu-miR-135a-5p(1)
siRNAs for circular RNA silencing
Junction sequence
TAGACTCCTGCCGGTTTCTTCTTGGT
siRNA sets
AAGAAGAAACCGGCAGGAG, CCAAGAAGAAACCGGCAGG, AGAAGAAACCGGCAGGAGT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCCCDC141_485_ORF_1
0.7893
-0.043575042
0.109810558
261
ORF sequence:
ATGGTGGAAAGGAAAGCCTGGTTATCGATGGCAAATGACTTTTTTACCAGTGCTAACAAGTCATTTGATGTACTTGGGAAAGTTGAAGCTTACCTTAAGCTCCTTAAATCAGAGGGTTTAAGCCTGCCTGTCTTGGCAGCGAAGCATGAGGAATTACACAGAGAAATTAAAGACTCTACAGCCACTGCTCTGCAAAAGGGACGAACCTTAATCAGCCAAGTAGACTCCTGCCGGTTTCTTCTTGGTTTCAGAAAGCAATAA
Peptide sequence:
MVERKAWLSMANDFFTSANKSFDVLGKVEAYLKLLKSEGLSLPVLAAKHEELHREIKDSTATALQKGRTLISQVDSCRFLLGFRKQ
IRESfinder result
IRESfinder score
0.578656717
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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