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mmu_circDtl_677
Basic information of circular RNA
PanCircBase ID:
mmu_circDtl_677
mm39_Chr. Position ID:
chr1|191288552|191300668|-
Gene name:
Dtl
Transcript:
ENSMUST00000195650.6
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
8
Exon/intron indexes:
11,10,9,8,7,6,5,4
Exon/intron offsets:
0,343,1620,4984,6670,8878,11850,12054
Genomic length:
12116
Exon/intron sizes in nt:
105,104,74,113,66,32,121,62
Flanking exon/introns:
chr1:191285212-191288552|chr1:191300668-191301778
Splice length:
677
Other database IDs:
CIRCpedia: MMU_CIRCpedia_216213, circAtlas: mmu-Dtl_0011
Human Ortholog IDs:
Mature spliced Sequence:
AGTGGATGGCTCACTGGAATGCTGTCTTTGACTTGGCCTGGGTCCCTGGTGAACTTAAACTTGTTACAGCAGCCGGTGATCAGACAGCCAAATTTTGGGATGTAAGAGCTGGTGAGCTGATGGGGACATGCAAAGGCCACCAGTGCAGCCTCAAGTCTGTAGCCTTTCCCAAGTTTCAAAAAGCTCATCGTGTGTAACTCCACATTCTCAAATATCTGTGTTCTCTACAGGGGGGAGAGACGGCAACATTATGATCTGGGACACCAGGTGTAACAAAAAAGATGGATTTTATAGACAAGTGAATCAAATCAGTGGAGCTCACAATACTGCAGACAAGCAAACCCCTTCAAAGCCCAAGAAGAAACAAAATTCAAAAGGACTTGCTCCTGCTGTGGATTCCCAGCAGAGTGTTACTGTGGTCCTCTTTCAGGATGAGAATACATTAGTCTCAGCAGGAGCCGTGGATGGAATAATCAAAGTATGGGATTTGCGCAAGAATTACACTGCTTATCGACAAGAACCCATAGCATCCAAGTCTTTCCTGTACCCAGGTACCAGCACTCGAAAGCTAGGATACTCGAGTTTGGTTTTAGACTCTACTGGCTCTACTTTATTTGCTAACTGCACAGATGACAACATCTATATGTTCAATATGACTGGCTTAAAGACTTCTCCGG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GCTAACTGCACAGATGACAACA
59.19
ATCACCGGCTGCTGTAACAA
59.96
141
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GCTAACTGCACAGATGACAACA
59.19
CTGATCACCGGCTGCTGTAA
60.11
144
PCR template sequence:
TCGAGTTTGGTTTTAGACTCTACTGGCTCTACTTTATTTGCTAACTGCACAGATGACAACATCTATATGTTCAATATGACTGGCTTAAAGACTTCTCCGGAGTGGATGGCTCACTGGAATGCTGTCTTTGACTTGGCCTGGGTCCCTGGTGAACTTAAACTTGTTACAGCAGCCGGTGATCAGACAGCCAAATTTTGGGA
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-7b-5p(1), mmu-miR-103-3p(1), mmu-miR-370-3p(1), mmu-miR-107-3p(1), mmu-miR-7a-2-3p(1)
siRNAs for circular RNA silencing
Junction sequence
AAGACTTCTCCGGAGTGGATGGCTCA
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCDTL_677_ORF_1
0.7205
0.031329511
0.829739957
747
ORF sequence:
ATGCAAAGGCCACCAGTGCAGCCTCAAGTCTGTAGCCTTTCCCAAGTTTCAAAAAGCTCATCGTGTGTAACTCCACATTCTCAAATATCTGTGTTCTCTACAGGGGGGAGAGACGGCAACATTATGATCTGGGACACCAGGTGTAACAAAAAAGATGGATTTTATAGACAAGTGAATCAAATCAGTGGAGCTCACAATACTGCAGACAAGCAAACCCCTTCAAAGCCCAAGAAGAAACAAAATTCAAAAGGACTTGCTCCTGCTGTGGATTCCCAGCAGAGTGTTACTGTGGTCCTCTTTCAGGATGAGAATACATTAGTCTCAGCAGGAGCCGTGGATGGAATAATCAAAGTATGGGATTTGCGCAAGAATTACACTGCTTATCGACAAGAACCCATAGCATCCAAGTCTTTCCTGTACCCAGGTACCAGCACTCGAAAGCTAGGATACTCGAGTTTGGTTTTAGACTCTACTGGCTCTACTTTATTTGCTAACTGCACAGATGACAACATCTATATGTTCAATATGACTGGCTTAAAGACTTCTCCGGAGTGGATGGCTCACTGGAATGCTGTCTTTGACTTGGCCTGGGTCCCTGGTGAACTTAAACTTGTTACAGCAGCCGGTGATCAGACAGCCAAATTTTGGGATGTAAGAGCTGGTGAGCTGATGGGGACATGCAAAGGCCACCAGTGCAGCCTCAAGTCTGTAGCCTTTCCCAAGTTTCAAAAAGCTCATCGTGTGTAA
Peptide sequence:
MQRPPVQPQVCSLSQVSKSSSCVTPHSQISVFSTGGRDGNIMIWDTRCNKKDGFYRQVNQISGAHNTADKQTPSKPKKKQNSKGLAPAVDSQQSVTVVLFQDENTLVSAGAVDGIIKVWDLRKNYTAYRQEPIASKSFLYPGTSTRKLGYSSLVLDSTGSTLFANCTDDNIYMFNMTGLKTSPEWMAHWNAVFDLAWVPGELKLVTAAGDQTAKFWDVRAGELMGTCKGHQCSLKSVAFPKFQKAHRV
IRESfinder result
IRESfinder score
0.645392443
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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