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mmu_ciPtpre_1424
Basic information of circular RNA
PanCircBase ID:
mmu_ciPtpre_1424
mm39_Chr. Position ID:
chr7|135274550|135275974|+
Gene name:
Ptpre
Transcript:
ENSMUST00000211140.2
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
16
Exon/intron offsets:
0
Genomic length:
1424
Exon/intron sizes in nt:
1424
Flanking exon/introns:
chr7:135274550-135275976
Splice length:
1424
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTATGTACCGCAGTCCTGTGTGTGTGTGCTCATTGCAACATGTGACTCCTTCCTGTGTAAATATGTGCCCTTGAGTGTGAGCGTTGCTTTCCACCCAATAAGGAGCACTGGCATGCCATTTTTCTTGGCAGAATTACTTTGCTTTTAAAATAATAAATAGTGAGCCAAGTGTGGTGGTATACACCTGTAATTCCAGCTGTTGGGAATTAGGAGTCTAAAGCTAGCCTCAGCTACATAGGGACTTTGAAGCCGGCCTGTACTACATGAGACCTTGCTTCAAAAAAGTCACAATAAGGGAAAGATGACTTATCAACTAAGAGCACTTGCTGCTCTTGCAGAGGACCTAGGTTTAATTCTCAGCACCCACATAGTGGTTCAAAACTACTGGAACTCCATTGTCAAGGGAACCAAAGCTCTCTTTTCATCTCCACAGACACAAGGCATATACATGGTATACATACATGAATGCATACATACATACATATAAACATACATGCAGGCAAACACTCATGCACATTAAATTAAAAAGCAATAAAACCTTTAAAAGGACAAAAAAAATCAACAAATACTGAGCTTTGGAAATGAGGCCTAGCCTTGCTGCTGAATAATTGTCTGTTTCCACATGACAATGGAAAGCTCCTCTACATTTGCATATTGTGACACCACAGTTTTATGTGAAGAGCACGTGTTGGCTCTTGAGTGATGTCTGTGACTTGAACCCATATAGACTGGGCAATTATCTGTCTGGCACACAGCTGGATCCAGTCTCCATGCACGGTGGAGTTGGCAGAGAAAGAGACAAGAGAGAACTTTGTGACCATATGGCTATTAGCACTTCTGTCTGCACTGGAGTGAACTAATGGACGTGTTGAGACCAGAGGTCCCTGCTCTAGCTTCACACTCAGCACCACTGAGATAGGAATCTAGCTGGGGCACAGAGCCCATGAGAATCAAGGCCACTGTGTGCTGTGCTGGTAACCTTGGGCCTCTAATAGCTCTTAGAGATGACTTCAGCTACTGAGGTGGGATGTGTAGAGAAGCACCCTGATAAAAAGGCAGTTCCTGCTTGGTGGGTACATCCGTGGGCTGTGGCATGCACCTGTGACAGCAGGCCTCTGTTAAGGCCATCTAGGATATGCACCTGTGTCAGGCCATCTAGGACATGCACCTGTGACAGCAGGCCTCTGTTCAGGCCATCTAGGACATGCACCTGTGACAGCAGGCCTCTGTTAAGGCCATCTAGGACATGCACCTGTGACAGCAGGCCTCTGTTCAGGCCATCTAGGGCATGCGCCTGTGTCAGCAGGCCTCTGTTCAGGCTATGGAACATTGGATTGCTGACATCAGCCTAGGGCTTTCCTGAGTGCCTGTGGAGATGGAGGCTCTGGTGACAAGTAGCCCTCCCCTAACCTCTGCTTCTCTCA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CTGAGTGCCTGTGGAGATGG
60.11
GGAAAGCAACGCTCACACTC
59.76
157
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CCTGAGTGCCTGTGGAGATG
60.11
GGAAAGCAACGCTCACACTC
59.76
158
PCR template sequence:
GAACATTGGATTGCTGACATCAGCCTAGGGCTTTCCTGAGTGCCTGTGGAGATGGAGGCTCTGGTGACAAGTAGCCCTCCCCTAACCTCTGCTTCTCTCAGTATGTACCGCAGTCCTGTGTGTGTGTGCTCATTGCAACATGTGACTCCTTCCTGTGTAAATATGTGCCCTTGAGTGTGAGCGTTGCTTTCCACCCAATA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
19
Interacting miRNAs (#binding sites)
mmu-miR-297a-5p(3), mmu-miR-466a-5p(3), mmu-miR-466p-5p(3), mmu-miR-322-5p(2), mmu-miR-335-5p(2), mmu-miR-1187(2), mmu-miR-137-3p(1), mmu-miR-9-5p(1), mmu-miR-140-5p(1), mmu-miR-16-5p(1), mmu-miR-205-5p(1), mmu-miR-152-3p(1), mmu-miR-148b-3p(1), mmu-miR-148a-3p(1), mmu-miR-298-5p(1), mmu-miR-127-5p(1), mmu-miR-690(1), mmu-miR-532-5p(1), mmu-miR-669d-5p(1)
siRNAs for circular RNA silencing
Junction sequence
TCTGCTTCTCTCAGTATGTACCGCAG
siRNA sets
GTACATACTGAGAGAAGCA,GGTACATACTGAGAGAAGC,ACATACTGAGAGAAGCAGA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIPTPRE_1424_ORF_5
0.7096
-0.185354399
0.020627293
123
ORF sequence:
ATGGAGGCTCTGGTGACAAGTAGCCCTCCCCTAACCTCTGCTTCTCTCAGTATGTACCGCAGTCCTGTGTGTGTGTGCTCATTGCAACATGTGACTCCTTCCTGTGTAAATATGTGCCCTTGA
Peptide sequence:
MEALVTSSPPLTSASLSMYRSPVCVCSLQHVTPSCVNMCP
IRESfinder result
IRESfinder score
0.647149984
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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