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mmu_circLrpprc_1228
Basic information of circular RNA
PanCircBase ID:
mmu_circLrpprc_1228
mm39_Chr. Position ID:
chr17|85060156|85078978|-
Gene name:
Lrpprc
Transcript:
ENSMUST00000112308.9
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
13
Exon/intron indexes:
19,18,17,16,15,14,13,12,11,10,9,8,7
Exon/intron offsets:
0,385,676,1812,3529,9223,11723,14264,16866,17271,17625,18114,18695
Genomic length:
18822
Exon/intron sizes in nt:
45,78,10,75,82,86,79,40,00,00,00,00,00,00,00,000
Flanking exon/introns:
chr17:85059850-85060156|chr17:85078978-85079520
Splice length:
1228
Other database IDs:
circAtlas: hsa-SCAF8_0001
Human Ortholog IDs:
Mature spliced Sequence:
GGATATGGAAAATGCAGAAAATATTCTCACAGTGATGAAACAGGCCGGCATTGAGCCTGGCCCAGACACGTATCTGGCCTTGTTGAATGCACATGCTGAGAGGGGTGACATTGGCCAGGTTAGGCAGATTCTGGAGAAAGTGGAGAAGTCAGACCATTACTTCATGGACCGCGACTTCTTGCAGGTTATTTTTAGCTTCAGTAAGGCTGGCTACCCTCAGTATGTCTCAGAAATACTGGAGAAGATTACCTATGAGAGACGGTCTATTCCAGATGCAATGAACCTCATTTTGTTTTTAGCCACTGAGAAGTTAGAAGACACTGCGTTCCAGGTTTTATTGGCATTACCCCTGTCCAAGGACGAGAGCTCCGATAACTTTGGCAGTTTCTTTTTGCGGCACTGTGTGACTCTGGATTTGCCCCCTGAGAAGCTGATAGACTACTGTCGGAGGCTGAGGGACGCCAAGCTGCACAGCTCCTCACTGCAGTTCACGCTGCACTGTGCTCTTCAAGCCAATAGGACAGCTTTGGCAAAAGCAGTGATGGAGGCTTTGAGGGAAGAAGGGTTTCCTATCCGACCGCACTATTTCTGGCCGTTGCTTGCTGGGCATCAGAAAACAAAAAATGTTCAAGGAATAATAGATATCCTCAAAATAATGAACAAAGTGGGAGTGGATCCTGATCAGGAAACATATATAAACTATGTGTTTCCGTGCTTTGATAGTGCACAGTCAGTTCGAGCTGCTTTGCAGGAAAATGAATGTCTCCTCGCAAGTAGTACCTTTGCTCAAGCTGAAGTGAAGAATGAAGCAATAAATGGGAACTTACAGAACATTTTGTCATTTTTGGAATCGAATACATTGCCTTTCTCGTTTAGTTCTTTGAGAAACAGCCTAATCCTAGGCTTCAGGAGGTCGATGAACATAGATCTTTGGAGCAAGATAACAGAATTGTTGTACAAGGATGAACGCTATTGCTCAAAGCCTCCGGGACCAGCGGAAGCTGTTGGCTATTTTCTTTATAACTTGATTGACAGCATGAGTGACTCAGAGGTACAGGCCAAGGAGGAGCGTTTGAGACAATACTTCCATCAGCTGCAGGAGATGAATGTTAAAGTTCCTGAAAACATCTACAAAGGCATTTGTAATTTGCTGAATACCTACCATGTTCCTGAATTGATTAAGGATATTAAGGTTCTGGTTGACAGAGAGAAGGTAGATTCTCAAAAA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGCTGAATACCTACCATGTTCCT
59.22
CAGATACGTGTCTGGGCCAG
60.18
156
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GCTGAATACCTACCATGTTCCTG
58.87
CAGATACGTGTCTGGGCCAG
60.18
155
PCR template sequence:
CTACAAAGGCATTTGTAATTTGCTGAATACCTACCATGTTCCTGAATTGATTAAGGATATTAAGGTTCTGGTTGACAGAGAGAAGGTAGATTCTCAAAAAGGATATGGAAAATGCAGAAAATATTCTCACAGTGATGAAACAGGCCGGCATTGAGCCTGGCCCAGACACGTATCTGGCCTTGTTGAATGCACATGCTGAG
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-181b-5p(2), mmu-miR-181d-5p(2), mmu-miR-137-3p(1), mmu-miR-181a-5p(1), mmu-miR-152-3p(1), mmu-miR-148b-3p(1), mmu-miR-503-5p(1), mmu-miR-127-5p(1), mmu-miR-199b-3p(1), mmu-miR-199a-3p(1), mmu-miR-340-5p(1), mmu-miR-207(1), mmu-miR-5101(1), mmu-miR-484(1)
siRNAs for circular RNA silencing
Junction sequence
AGATTCTCAAAAAGGATATGGAAAAT
siRNA sets
TTTCCATATCCTTTTTGAG, ATTTTCCATATCCTTTTTG, TTTTCCATATCCTTTTTGA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCLRPPRC_1228_ORF_1
1.0345
0.133587883
0.998327814
1278
ORF sequence:
ATGGAAAATGCAGAAAATATTCTCACAGTGATGAAACAGGCCGGCATTGAGCCTGGCCCAGACACGTATCTGGCCTTGTTGAATGCACATGCTGAGAGGGGTGACATTGGCCAGGTTAGGCAGATTCTGGAGAAAGTGGAGAAGTCAGACCATTACTTCATGGACCGCGACTTCTTGCAGGTTATTTTTAGCTTCAGTAAGGCTGGCTACCCTCAGTATGTCTCAGAAATACTGGAGAAGATTACCTATGAGAGACGGTCTATTCCAGATGCAATGAACCTCATTTTGTTTTTAGCCACTGAGAAGTTAGAAGACACTGCGTTCCAGGTTTTATTGGCATTACCCCTGTCCAAGGACGAGAGCTCCGATAACTTTGGCAGTTTCTTTTTGCGGCACTGTGTGACTCTGGATTTGCCCCCTGAGAAGCTGATAGACTACTGTCGGAGGCTGAGGGACGCCAAGCTGCACAGCTCCTCACTGCAGTTCACGCTGCACTGTGCTCTTCAAGCCAATAGGACAGCTTTGGCAAAAGCAGTGATGGAGGCTTTGAGGGAAGAAGGGTTTCCTATCCGACCGCACTATTTCTGGCCGTTGCTTGCTGGGCATCAGAAAACAAAAAATGTTCAAGGAATAATAGATATCCTCAAAATAATGAACAAAGTGGGAGTGGATCCTGATCAGGAAACATATATAAACTATGTGTTTCCGTGCTTTGATAGTGCACAGTCAGTTCGAGCTGCTTTGCAGGAAAATGAATGTCTCCTCGCAAGTAGTACCTTTGCTCAAGCTGAAGTGAAGAATGAAGCAATAAATGGGAACTTACAGAACATTTTGTCATTTTTGGAATCGAATACATTGCCTTTCTCGTTTAGTTCTTTGAGAAACAGCCTAATCCTAGGCTTCAGGAGGTCGATGAACATAGATCTTTGGAGCAAGATAACAGAATTGTTGTACAAGGATGAACGCTATTGCTCAAAGCCTCCGGGACCAGCGGAAGCTGTTGGCTATTTTCTTTATAACTTGATTGACAGCATGAGTGACTCAGAGGTACAGGCCAAGGAGGAGCGTTTGAGACAATACTTCCATCAGCTGCAGGAGATGAATGTTAAAGTTCCTGAAAACATCTACAAAGGCATTTGTAATTTGCTGAATACCTACCATGTTCCTGAATTGATTAAGGATATTAAGGTTCTGGTTGACAGAGAGAAGGTAGATTCTCAAAAAGGATATGGAAAATGCAGAAAATATTCTCACAGTGATGAAACAGGCCGGCATTGA
Peptide sequence:
MENAENILTVMKQAGIEPGPDTYLALLNAHAERGDIGQVRQILEKVEKSDHYFMDRDFLQVIFSFSKAGYPQYVSEILEKITYERRSIPDAMNLILFLATEKLEDTAFQVLLALPLSKDESSDNFGSFFLRHCVTLDLPPEKLIDYCRRLRDAKLHSSSLQFTLHCALQANRTALAKAVMEALREEGFPIRPHYFWPLLAGHQKTKNVQGIIDILKIMNKVGVDPDQETYINYVFPCFDSAQSVRAALQENECLLASSTFAQAEVKNEAINGNLQNILSFLESNTLPFSFSSLRNSLILGFRRSMNIDLWSKITELLYKDERYCSKPPGPAEAVGYFLYNLIDSMSDSEVQAKEERLRQYFHQLQEMNVKVPENIYKGICNLLNTYHVPELIKDIKVLVDREKVDSQKGYGKCRKYSHSDETGRH
IRESfinder result
IRESfinder score
0.660754481
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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