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mmu_circCspp1_662
Basic information of circular RNA
PanCircBase ID:
mmu_circCspp1_662
mm39_Chr. Position ID:
chr1|10134557|10145171|+
Gene name:
Cspp1
Transcript:
ENSMUST00000071087.12
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
5,6,7,8
Exon/intron offsets:
0,990,2093,10527
Genomic length:
10614
Exon/intron sizes in nt:
81,99,395,87
Flanking exon/introns:
chr1:10129048-10134557|chr1:10145171-10147396
Splice length:
662
Other database IDs:
circAtlas: mmu-Cspp1_0053
Human Ortholog IDs:
Mature spliced Sequence:
AAAAATTTCCTATCTACTGGTGAAACAGACCCATCTACTCTGGGAGTTTCTCTTCCCATTGATGAGCGGTTATCTGCCAAGGAAAGATTGAAACTTGAACGCAACCGAGAATACAATCAGTTTCTCAGGGGTAAGGCAGAATCCACAGAAAAAGTCAGACAGGTAGAAAAGAATATTGAGCCTAAGAGTCAAAGAAATAAAAACCCTATTAGTCAAGGTAAATCTGATCTACCTTTACAAATACAGACTGCATACACACATTCAGAGGGACCCTGGCTAAGCCGGCAAGAGGAGGGCCTGTACCGACAGCTAGATGGTGAAATTGAATTAAGGAGCAGAAGACCGCTTAAACAAACAAAGGAAGAAGTAGGCATTTCTGGTGCAGAACATCCAAGCCTTTCTGGCAGCGCTGGTGTCCCAGAGAGAAGAGCCCGCAGGGCTAACGGGGAGCGGGTGCTTGACAGACAACATTGCAGAGCCGACCGAGACCCTGGTGTGAGTGAAGACATGGACGAGAGGTTTAGATTTGAAAGTGATTTTGATAGAAGACTTTTGAGAGTGTATACAAATGGCAGGCCGCATGGGAGCAGACGAGGGTATGTGGATGGGGATGATGTCCCAGAAGAGCCAAACACACAGATCTCAGCTGCTGAAAATAAAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GAGCAGACGAGGGTATGTGG
59.9
CCTTGGCAGATAACCGCTCA
60.11
160
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GGAGCAGACGAGGGTATGTG
59.9
CCTTGGCAGATAACCGCTCA
60.11
161
PCR template sequence:
ATACAAATGGCAGGCCGCATGGGAGCAGACGAGGGTATGTGGATGGGGATGATGTCCCAGAAGAGCCAAACACACAGATCTCAGCTGCTGAAAATAAAAGAAAAATTTCCTATCTACTGGTGAAACAGACCCATCTACTCTGGGAGTTTCTCTTCCCATTGATGAGCGGTTATCTGCCAAGGAAAGATTGAAACTTGAAC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
8
Interacting miRNAs (#binding sites)
mmu-miR-125b-5p(1), mmu-miR-351-5p(1), mmu-miR-466a-5p(1), mmu-miR-1187(1), mmu-miR-466p-5p(1), mmu-miR-5101(1), mmu-miR-1904(1), mmu-miR-574-5p(1)
siRNAs for circular RNA silencing
Junction sequence
CTGAAAATAAAAGAAAAATTTCCTAT
siRNA sets
ATTTTTCTTTTATTTTCAG, AAATTTTTCTTTTATTTTC, ATAGGAAATTTTTCTTTTA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCCSPP1_662_ORF_1
0.698
-0.004855455
0.097908558
246
ORF sequence:
ATGGACGAGAGGTTTAGATTTGAAAGTGATTTTGATAGAAGACTTTTGAGAGTGTATACAAATGGCAGGCCGCATGGGAGCAGACGAGGGTATGTGGATGGGGATGATGTCCCAGAAGAGCCAAACACACAGATCTCAGCTGCTGAAAATAAAAGAAAAATTTCCTATCTACTGGTGAAACAGACCCATCTACTCTGGGAGTTTCTCTTCCCATTGATGAGCGGTTATCTGCCAAGGAAAGATTGA
Peptide sequence:
MDERFRFESDFDRRLLRVYTNGRPHGSRRGYVDGDDVPEEPNTQISAAENKRKISYLLVKQTHLLWEFLFPLMSGYLPRKD
IRESfinder result
IRESfinder score
0.475217722
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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