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mmu_circDnajc1_762
Basic information of circular RNA
PanCircBase ID:
mmu_circDnajc1_762
mm39_Chr. Position ID:
chr2|18289433|18321811|-
Gene name:
Dnajc1
Transcript:
ENSMUST00000091418.12
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
7
Exon/intron indexes:
8,7,6,5,4,3,2
Exon/intron offsets:
0,9331,22350,23292,24161,31735,32276
Genomic length:
32378
Exon/intron sizes in nt:
164,91,94,98,166,47,102
Flanking exon/introns:
chr2:18236634-18289433|chr2:18321811-18397101
Splice length:
762
Other database IDs:
circBase: mmu_circ_0009699, CIRCpedia: MMU_CIRCpedia_12463, circAtlas: mmu-Dnajc1_0001
circBase: hsa_circ_0017962, circAtlas: hsa-DJC1_0002, CIRCpedia: HSA_CIRCpedia_119821
Human Ortholog IDs:
Mature spliced Sequence:
GATGCTTCATCTGCAGACATCAGAAAAGCATATCGTAAGCTTTCACTAACCTTACATCCAGACAAGAATAAAGATGAAAATGCAGAAACTCAATTTAGACAATTGGTGGCCATTTATGAAGTTTTAAAGGATGATGAAAGAAGGCAGAGGTATGATGATGTTCTGATCAATGGACTTCCAGATTGGCGACAGCCTGTATTCTACTACAGGCGAGTGAGAAAAATGAGCAATGCTGAGCTGGCTTTGCTCTTGTTCATTATTCTCACAGTGGGTCACTATGCTGTGGTTTGGTCCATCTACCTGGAAAAGCAACTGGATGAACTGCTTGGTAGAAAAAAGAGAGAAAGGAAGAAGAAGACAGGAAGCAAGAGTGTGGACGCAGCAAAACTTGGTGCTTCTGAAAAGAACGAAAGATTGCTTATAAAACCACAATGGCATGATTTGCTTCCATGCAAACTGGGGATTTGGTTTTGCCTTACACTAAAAGCATTGCCTCATCTAATCCAGGATGCTGGGCAGTTTTATGCAAAATATAAGGAGACAAAATTGAAGGAAAAAGAAGACGCACTGGCTAGAATTGAAATTGAAACCCTTCAAAAACAGAAGAAAGTTAAAGTTAAAAAACCAAAACCAGAATTTCCTGTGTATATGCCTTTAGAAAATACGTATATTCAGTCTTATGATCATGGAACTTCTATTGAAGAAATTGAGGAGCAAATGGATGACTGGCTGGAAAACAGGAAAAGAACACAGAAAAGACAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GCAAATGGATGACTGGCTGG
59.54
TGAGTTTCTGCATTTTCATCTTT
55.32
141
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GCAAATGGATGACTGGCTGG
59.54
TTGAGTTTCTGCATTTTCATCTT
55.32
142
PCR template sequence:
TACGTATATTCAGTCTTATGATCATGGAACTTCTATTGAAGAAATTGAGGAGCAAATGGATGACTGGCTGGAAAACAGGAAAAGAACACAGAAAAGACAGGATGCTTCATCTGCAGACATCAGAAAAGCATATCGTAAGCTTTCACTAACCTTACATCCAGACAAGAATAAAGATGAAAATGCAGAAACTCAATTTAGAC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
5
Interacting miRNAs (#binding sites)
mmu-miR-9-5p(1), mmu-miR-335-5p(1), mmu-miR-383-5p(1), mmu-miR-335-3p(1), mmu-miR-338-3p(1)
siRNAs for circular RNA silencing
Junction sequence
ACAGAAAAGACAGGATGCTTCATCTG
siRNA sets
GAAGCATCCTGTCTTTTCT, AAGCATCCTGTCTTTTCTG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCDNAJC1_762_ORF_1
1.0756
0.051250988
0.998215298
1302
ORF sequence:
ATGAGCAATGCTGAGCTGGCTTTGCTCTTGTTCATTATTCTCACAGTGGGTCACTATGCTGTGGTTTGGTCCATCTACCTGGAAAAGCAACTGGATGAACTGCTTGGTAGAAAAAAGAGAGAAAGGAAGAAGAAGACAGGAAGCAAGAGTGTGGACGCAGCAAAACTTGGTGCTTCTGAAAAGAACGAAAGATTGCTTATAAAACCACAATGGCATGATTTGCTTCCATGCAAACTGGGGATTTGGTTTTGCCTTACACTAAAAGCATTGCCTCATCTAATCCAGGATGCTGGGCAGTTTTATGCAAAATATAAGGAGACAAAATTGAAGGAAAAAGAAGACGCACTGGCTAGAATTGAAATTGAAACCCTTCAAAAACAGAAGAAAGTTAAAGTTAAAAAACCAAAACCAGAATTTCCTGTGTATATGCCTTTAGAAAATACGTATATTCAGTCTTATGATCATGGAACTTCTATTGAAGAAATTGAGGAGCAAATGGATGACTGGCTGGAAAACAGGAAAAGAACACAGAAAAGACAGGATGCTTCATCTGCAGACATCAGAAAAGCATATCGTAAGCTTTCACTAACCTTACATCCAGACAAGAATAAAGATGAAAATGCAGAAACTCAATTTAGACAATTGGTGGCCATTTATGAAGTTTTAAAGGATGATGAAAGAAGGCAGAGGTATGATGATGTTCTGATCAATGGACTTCCAGATTGGCGACAGCCTGTATTCTACTACAGGCGAGTGAGAAAAATGAGCAATGCTGAGCTGGCTTTGCTCTTGTTCATTATTCTCACAGTGGGTCACTATGCTGTGGTTTGGTCCATCTACCTGGAAAAGCAACTGGATGAACTGCTTGGTAGAAAAAAGAGAGAAAGGAAGAAGAAGACAGGAAGCAAGAGTGTGGACGCAGCAAAACTTGGTGCTTCTGAAAAGAACGAAAGATTGCTTATAAAACCACAATGGCATGATTTGCTTCCATGCAAACTGGGGATTTGGTTTTGCCTTACACTAAAAGCATTGCCTCATCTAATCCAGGATGCTGGGCAGTTTTATGCAAAATATAAGGAGACAAAATTGAAGGAAAAAGAAGACGCACTGGCTAGAATTGAAATTGAAACCCTTCAAAAACAGAAGAAAGTTAAAGTTAAAAAACCAAAACCAGAATTTCCTGTGTATATGCCTTTAGAAAATACGTATATTCAGTCTTATGATCATGGAACTTCTATTGAAGAAATTGAGGAGCAAATGGATGACTGGCTGGAAAACAGGAAAAGAACACAGAAAAGACAG
Peptide sequence:
MSNAELALLLFIILTVGHYAVVWSIYLEKQLDELLGRKKRERKKKTGSKSVDAAKLGASEKNERLLIKPQWHDLLPCKLGIWFCLTLKALPHLIQDAGQFYAKYKETKLKEKEDALARIEIETLQKQKKVKVKKPKPEFPVYMPLENTYIQSYDHGTSIEEIEEQMDDWLENRKRTQKRQDASSADIRKAYRKLSLTLHPDKNKDENAETQFRQLVAIYEVLKDDERRQRYDDVLINGLPDWRQPVFYYRRVRKMSNAELALLLFIILTVGHYAVVWSIYLEKQLDELLGRKKRERKKKTGSKSVDAAKLGASEKNERLLIKPQWHDLLPCKLGIWFCLTLKALPHLIQDAGQFYAKYKETKLKEKEDALARIEIETLQKQKKVKVKKPKPEFPVYMPLENTYIQSYDHGTSIEEIEEQMDDWLENRKRTQKRQ
IRESfinder result
IRESfinder score
0.563771113
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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