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mmu_circCtdspl2_693
Basic information of circular RNA
PanCircBase ID:
mmu_circCtdspl2_693
mm39_Chr. Position ID:
chr2|121807811|121819382|+
Gene name:
Ctdspl2
Transcript:
ENSMUST00000036647.13
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
5
Exon/intron indexes:
3,4,5,6,7
Exon/intron offsets:
0,1561,3821,9618,11459
Genomic length:
11571
Exon/intron sizes in nt:
1,39,15,02,13,79,112
Flanking exon/introns:
chr2:121799760-121807811|chr2:121819382-121823826
Splice length:
693
Other database IDs:
circAtlas: mmu-Ctdspl2_0007
circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_368507
Human Ortholog IDs:
Mature spliced Sequence:
GAAGAGAGAGAAAATCCTTCGAAGCGGAGTAGAATTGAACGTGATATAGATAATAATTTAATCACATCAACACCAAGAACCGGAGAAAAGCCTGACAAACAGTTGTCTCGAGTAAGACGGAAAAGTCCAGTCAATGGAGAAGCTGGTAGTTATGAAATGACAAATCAACATATAAAGCAAAATGGAAAATTAGAAGATAACCCTTGCTCTGGTAGTCCTCCGAGGACTACATTGTTGGGGACCATATTTTCGCCTGTCTTCAACTTTTTTTCACCAGCAAATAAAAATGGAACGTCAGGCTCAGATTCCCCAGGACAGGCTGTGGAAGCTGAGGAGATAGTGAAACAACTTGACATGGAACAGGTGGATGAAATTACTACCAGCACCACGTCAGCTAATGGAGCGGCTTACTCAAATCAAGCAGTTCAAGTGAGGCCATCACTAAATAATGGTTTAGAAGAAGCAGAAGAAACAGTTACCCGGGATATCCCACCCCTTACAGCACCAGTAACTCCAGAGAGTGGGTACTCGTCAGCCCATGCAGAGGCCACCTATGAAGAAGACTGGGAAGTATTTGACCCCTATTATTTCATCAAACATGTTCCGCCTCTGACAGAAGAACAGCTAAATAGGAAACCTGCTCTTCCTTTGAAAACAAGAAGCACACCAGAGTTCTCCCTGGTCTTAGATCTG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ACATGTTCCGCCTCTGACAG
60.04
CCGGTTCTTGGTGTTGATGTG
59.73
180
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CATGTTCCGCCTCTGACAGA
59.75
TCCGGTTCTTGGTGTTGATGT
59.86
180
PCR template sequence:
CAAACATGTTCCGCCTCTGACAGAAGAACAGCTAAATAGGAAACCTGCTCTTCCTTTGAAAACAAGAAGCACACCAGAGTTCTCCCTGGTCTTAGATCTGGAAGAGAGAGAAAATCCTTCGAAGCGGAGTAGAATTGAACGTGATATAGATAATAATTTAATCACATCAACACCAAGAACCGGAGAAAAGCCTGACAAAC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
4
Interacting miRNAs (#binding sites)
mmu-miR-1904(2), mmu-miR-136-5p(1), mmu-miR-483-5p(1), mmu-miR-207(1)
siRNAs for circular RNA silencing
Junction sequence
GGTCTTAGATCTGGAAGAGAGAGAAA
siRNA sets
TTTCTCTCTCTTCCAGATC, TTCTCTCTCTTCCAGATCT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCCTDSPL2_693_ORF_1
0.9581
0.08679936
0.996786536
1230
ORF sequence:
ATGACAAATCAACATATAAAGCAAAATGGAAAATTAGAAGATAACCCTTGCTCTGGTAGTCCTCCGAGGACTACATTGTTGGGGACCATATTTTCGCCTGTCTTCAACTTTTTTTCACCAGCAAATAAAAATGGAACGTCAGGCTCAGATTCCCCAGGACAGGCTGTGGAAGCTGAGGAGATAGTGAAACAACTTGACATGGAACAGGTGGATGAAATTACTACCAGCACCACGTCAGCTAATGGAGCGGCTTACTCAAATCAAGCAGTTCAAGTGAGGCCATCACTAAATAATGGTTTAGAAGAAGCAGAAGAAACAGTTACCCGGGATATCCCACCCCTTACAGCACCAGTAACTCCAGAGAGTGGGTACTCGTCAGCCCATGCAGAGGCCACCTATGAAGAAGACTGGGAAGTATTTGACCCCTATTATTTCATCAAACATGTTCCGCCTCTGACAGAAGAACAGCTAAATAGGAAACCTGCTCTTCCTTTGAAAACAAGAAGCACACCAGAGTTCTCCCTGGTCTTAGATCTGGAAGAGAGAGAAAATCCTTCGAAGCGGAGTAGAATTGAACGTGATATAGATAATAATTTAATCACATCAACACCAAGAACCGGAGAAAAGCCTGACAAACAGTTGTCTCGAGTAAGACGGAAAAGTCCAGTCAATGGAGAAGCTGGTAGTTATGAAATGACAAATCAACATATAAAGCAAAATGGAAAATTAGAAGATAACCCTTGCTCTGGTAGTCCTCCGAGGACTACATTGTTGGGGACCATATTTTCGCCTGTCTTCAACTTTTTTTCACCAGCAAATAAAAATGGAACGTCAGGCTCAGATTCCCCAGGACAGGCTGTGGAAGCTGAGGAGATAGTGAAACAACTTGACATGGAACAGGTGGATGAAATTACTACCAGCACCACGTCAGCTAATGGAGCGGCTTACTCAAATCAAGCAGTTCAAGTGAGGCCATCACTAAATAATGGTTTAGAAGAAGCAGAAGAAACAGTTACCCGGGATATCCCACCCCTTACAGCACCAGTAACTCCAGAGAGTGGGTACTCGTCAGCCCATGCAGAGGCCACCTATGAAGAAGACTGGGAAGTATTTGACCCCTATTATTTCATCAAACATGTTCCGCCTCTGACAGAAGAACAGCTAAATAGGAAACCTGCTCTTCCTTTGAAAACAAGAAGCACACCAGAGTTCTCCCTGGTCTTAGATCTG
Peptide sequence:
MTNQHIKQNGKLEDNPCSGSPPRTTLLGTIFSPVFNFFSPANKNGTSGSDSPGQAVEAEEIVKQLDMEQVDEITTSTTSANGAAYSNQAVQVRPSLNNGLEEAEETVTRDIPPLTAPVTPESGYSSAHAEATYEEDWEVFDPYYFIKHVPPLTEEQLNRKPALPLKTRSTPEFSLVLDLEERENPSKRSRIERDIDNNLITSTPRTGEKPDKQLSRVRRKSPVNGEAGSYEMTNQHIKQNGKLEDNPCSGSPPRTTLLGTIFSPVFNFFSPANKNGTSGSDSPGQAVEAEEIVKQLDMEQVDEITTSTTSANGAAYSNQAVQVRPSLNNGLEEAEETVTRDIPPLTAPVTPESGYSSAHAEATYEEDWEVFDPYYFIKHVPPLTEEQLNRKPALPLKTRSTPEFSLVLDL
IRESfinder result
IRESfinder score
0.666395554
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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