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mmu_circPpp6r3_1481
Basic information of circular RNA
PanCircBase ID:
mmu_circPpp6r3_1481
mm39_Chr. Position ID:
chr19|3516492|3557355|-
Gene name:
Ppp6r3
Transcript:
ENSMUST00000025846.16
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
13
Exon/intron indexes:
20,19,18,17,16,15,14,13,12,11,10,9,8
Exon/intron offsets:
0,648,3148,4478,5486,7276,18338,20483,24281,25873,27393,30029,40749
Genomic length:
40863
Exon/intron sizes in nt:
10,71,54,12,21,31,55,90,00,00,00,00,00,00,00,00,000
Flanking exon/introns:
chr19:3514695-3516492|chr19:3557355-3561928
Splice length:
1481
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GCAAGAAATTATTGAGCAGCTTCTGTCAAATATTTTTCACAAGGAGAAGAATGAATCGGCCATAGTCAGTGCAATTCAGATTTTGCTGACTTTGCTTGAGACTCGACGGCCAACGTTTGAAGGCCATATAGAAATCTGCCCCCCGGGCATGAGTCATTCAGCTTGTTCAGTTAACAAGAGTGTTCTTGAAGCCATCCGAGGAAGACTTGGATCTTTCCATGAACTCCTACTCGAGCCACCCAAGAAAAGTGTGATGAAGACTACATGGGGTATATTGGACCCACCTGTGGGGAATACTCGATTAAATGTCATTAGGTTGATATCCAGCCTGCTCCAAACCAATACCAGCAGCATAAATGGAGACCTGATGGAACTGAACAGCATTGGCGTCATATTGGATATGTTCTTCAAGTACACATGGAATAACTTTCTACACACGCAAGTGGAAATTTGCATTGCTCTCATTCTGGCCAGTCCTTTTGAGAATGCAGAGAATGGCACAATTACTGATCAAGACTCCACTGGTGACAATTTGTTATTGAAGCATCTTTTTCAAAAGTGTCAGTTAATAGAGCGAATACTTGAAGCCTGGGACACAAATGAGAAGAAACAGGCTGAAGGAGGACGACGGCATGGTTACATGGGACACCTTACGAGGATAGCTAACTGTATTGTGCACAGCACTGACAAGGGTCCGAACAGTGCGTTAGTACAGCAGCTCATCAAAGATCTTCCCGATGAAGTCAGGGAGCGGTGGGAGACGTTCTGCACGAACTCCTTAGGAGAGACGAACAAGAGGAACACGGTAGATCTAGCCTTTTCTGATTATCAGATGCAACAAATGACGTCCAATTTTATTGACCAGTTTGGCTTCAACGATGAGAAGTTTGCAGACCAAGACGACATTGGCAATGTTTCTTTTGATCGGGTGTCAGATATCAACTTTACTCTCAATACAAATGAAAGTGGAAATATTGCCCTGTTTGAAGCATGTTGTAAAGAACGGATACAACAATTTGATGATGGCGGCTCTGATGAAGAGGATATCTGGGAGGAGAAGCACATTGCATTTACTCCCGAATCCCAGAGGAGGTCCAGCTCTGGCAGTACGGACAGTGAAGAAAGTACAGACTCTGAAGAAGAAGATGGGGCCAAACAAGACCTGTTTGAGTCCAGCAGTGCAAACACAGAGGACAAAATGGAGGTGGATCTGAATGAGCCACCCACCTGGTCAGCCAACTTTGACGTCCCAATGGAAACCACCCATGGTGCTCCCTTAGACTCCGTGGGATCCGATGTCTGGAGCACAGAGGAGCCAATGCCAACTAAAGAGACAGGCTGGGCTTCCTTTTCAGAGTTCACATCCTCCCTGAGCACAAAGGAGTCTTTAAGGAGTAATTCGCCTGTGGAAATGGAAACCAGCACTGAATCCGTGGACCCCTTGACACCTGGTGCAGCTGCCTTGGCCACTCAGCCAGAGG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CGCCTGTGGAAATGGAAACC
59.76
TGCACTGACTATGGCCGATT
59.46
154
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CGCCTGTGGAAATGGAAACC
59.76
TTGCACTGACTATGGCCGAT
59.46
155
PCR template sequence:
GAGTCTTTAAGGAGTAATTCGCCTGTGGAAATGGAAACCAGCACTGAATCCGTGGACCCCTTGACACCTGGTGCAGCTGCCTTGGCCACTCAGCCAGAGGGCAAGAAATTATTGAGCAGCTTCTGTCAAATATTTTTCACAAGGAGAAGAATGAATCGGCCATAGTCAGTGCAATTCAGATTTTGCTGACTTTGCTTGAG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
14
Interacting miRNAs (#binding sites)
mmu-miR-136-5p(2), mmu-miR-9-5p(1), mmu-miR-32-5p(1), mmu-miR-375-3p(1), mmu-miR-92a-3p(1), mmu-miR-25-3p(1), mmu-miR-138-5p(1), mmu-miR-127-3p(1), mmu-miR-690(1), mmu-miR-29b-2-5p(1), mmu-miR-802-5p(1), mmu-miR-207(1), mmu-miR-670-5p(1), mmu-miR-544-5p(1)
siRNAs for circular RNA silencing
Junction sequence
ACTCAGCCAGAGGGCAAGAAATTATT
siRNA sets
ATAATTTCTTGCCCTCTGG, AATAATTTCTTGCCCTCTG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCPPP6R3_1481_ORF_1
0.9213
0.18535234
0.999288344
1398
ORF sequence:
ATGAGTCATTCAGCTTGTTCAGTTAACAAGAGTGTTCTTGAAGCCATCCGAGGAAGACTTGGATCTTTCCATGAACTCCTACTCGAGCCACCCAAGAAAAGTGTGATGAAGACTACATGGGGTATATTGGACCCACCTGTGGGGAATACTCGATTAAATGTCATTAGGTTGATATCCAGCCTGCTCCAAACCAATACCAGCAGCATAAATGGAGACCTGATGGAACTGAACAGCATTGGCGTCATATTGGATATGTTCTTCAAGTACACATGGAATAACTTTCTACACACGCAAGTGGAAATTTGCATTGCTCTCATTCTGGCCAGTCCTTTTGAGAATGCAGAGAATGGCACAATTACTGATCAAGACTCCACTGGTGACAATTTGTTATTGAAGCATCTTTTTCAAAAGTGTCAGTTAATAGAGCGAATACTTGAAGCCTGGGACACAAATGAGAAGAAACAGGCTGAAGGAGGACGACGGCATGGTTACATGGGACACCTTACGAGGATAGCTAACTGTATTGTGCACAGCACTGACAAGGGTCCGAACAGTGCGTTAGTACAGCAGCTCATCAAAGATCTTCCCGATGAAGTCAGGGAGCGGTGGGAGACGTTCTGCACGAACTCCTTAGGAGAGACGAACAAGAGGAACACGGTAGATCTAGCCTTTTCTGATTATCAGATGCAACAAATGACGTCCAATTTTATTGACCAGTTTGGCTTCAACGATGAGAAGTTTGCAGACCAAGACGACATTGGCAATGTTTCTTTTGATCGGGTGTCAGATATCAACTTTACTCTCAATACAAATGAAAGTGGAAATATTGCCCTGTTTGAAGCATGTTGTAAAGAACGGATACAACAATTTGATGATGGCGGCTCTGATGAAGAGGATATCTGGGAGGAGAAGCACATTGCATTTACTCCCGAATCCCAGAGGAGGTCCAGCTCTGGCAGTACGGACAGTGAAGAAAGTACAGACTCTGAAGAAGAAGATGGGGCCAAACAAGACCTGTTTGAGTCCAGCAGTGCAAACACAGAGGACAAAATGGAGGTGGATCTGAATGAGCCACCCACCTGGTCAGCCAACTTTGACGTCCCAATGGAAACCACCCATGGTGCTCCCTTAGACTCCGTGGGATCCGATGTCTGGAGCACAGAGGAGCCAATGCCAACTAAAGAGACAGGCTGGGCTTCCTTTTCAGAGTTCACATCCTCCCTGAGCACAAAGGAGTCTTTAAGGAGTAATTCGCCTGTGGAAATGGAAACCAGCACTGAATCCGTGGACCCCTTGACACCTGGTGCAGCTGCCTTGGCCACTCAGCCAGAGGGCAAGAAATTATTGAGCAGCTTCTGTCAAATATTTTTCACAAGGAGAAGAATGAATCGGCCATAG
Peptide sequence:
MSHSACSVNKSVLEAIRGRLGSFHELLLEPPKKSVMKTTWGILDPPVGNTRLNVIRLISSLLQTNTSSINGDLMELNSIGVILDMFFKYTWNNFLHTQVEICIALILASPFENAENGTITDQDSTGDNLLLKHLFQKCQLIERILEAWDTNEKKQAEGGRRHGYMGHLTRIANCIVHSTDKGPNSALVQQLIKDLPDEVRERWETFCTNSLGETNKRNTVDLAFSDYQMQQMTSNFIDQFGFNDEKFADQDDIGNVSFDRVSDINFTLNTNESGNIALFEACCKERIQQFDDGGSDEEDIWEEKHIAFTPESQRRSSSGSTDSEESTDSEEEDGAKQDLFESSSANTEDKMEVDLNEPPTWSANFDVPMETTHGAPLDSVGSDVWSTEEPMPTKETGWASFSEFTSSLSTKESLRSNSPVEMETSTESVDPLTPGAAALATQPEGKKLLSSFCQIFFTRRRMNRP
IRESfinder result
IRESfinder score
0.601532628
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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