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mmu_circLrpprc_817
Basic information of circular RNA
PanCircBase ID:
mmu_circLrpprc_817
mm39_Chr. Position ID:
chr17|85038572|85058782|-
Gene name:
Lrpprc
Transcript:
ENSMUST00000112308.9
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
7
Exon/intron indexes:
27,26,25,24,23,22,21
Exon/intron offsets:
0,604,8925,9399,17816,19363,20079
Genomic length:
20210
Exon/intron sizes in nt:
9,16,91,07,12,52,08,86,000
Flanking exon/introns:
chr17:85034100-85038572|chr17:85058782-85059736
Splice length:
817
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
AATATGCAAAAGGCCCTTGAGGTGAAAGCAAAATATGAGTCAGACATGGTTATTGGTGGCTATGCAGCATTAATAAATTTGTGCTGTCGACATGATAATGCAGAAGATGCGTGGAACTTGAAACAAGAAGTTGACCGCTTAGATGCTTCGGCTATTCTTGACACTGCCAAGTACGTAGCCCTTGTAAAAGTACTGGGAAAGCACAGCAGACTCCAAGATGCTATTAACATTCTAAAGGAGATGAAAGAGAAGGATGTTGTTATCAAAGATGCAACAGTCTTGTCCTTTTTCCACATCCTCAATGGTGCAGCTTTAAGAGGTGAAATTGAAACAGTAAAACAGCTGCATGAAGCCATCGTGACTCTTGGGTTGGCAAAGCCGTCCAGCAACATAAGCTTCCCGTTGGTCACTGTGCACCTGGAAAAGGGTGACTTACCTGCTGCTCTTGAAGCCAGCATTGCCTGCCATAAAAAATATAAAGTGTTACCCAGGATTCATGATGTCTTATGTAAGCTAGTAGAGAAAGGCGAGACTGATTTGATCCAGAAAGCAATGGACTTTGTGAGCCAAGAACAAGGGGAGATGACGATGCTCTACGACCTCTTCTTTGCTTTCCTGCAGACGGGGAATTACAAAGAAGCTAAGAAGATCATTGAGACTCCAGGCATTAGAGCTCGGCCTACAAGACTCCAGTGGTTTTGTGATCGATGCATTGCCAGTAATCAGGTTGAAGCTCTTGAGAAGTTGGTAGAGCTGACTGAGAAGCTGTTTGAGTGTGACAGAGACCAGATGTACTACAACTTACTGAAGCTATACA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGGTAGAGCTGACTGAGAAGC
59.18
GCTGCATAGCCACCAATAACC
59.66
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TTGGTAGAGCTGACTGAGAAGC
59.77
GCTGCATAGCCACCAATAACC
59.66
141
PCR template sequence:
AGTAATCAGGTTGAAGCTCTTGAGAAGTTGGTAGAGCTGACTGAGAAGCTGTTTGAGTGTGACAGAGACCAGATGTACTACAACTTACTGAAGCTATACAAATATGCAAAAGGCCCTTGAGGTGAAAGCAAAATATGAGTCAGACATGGTTATTGGTGGCTATGCAGCATTAATAAATTTGTGCTGTCGACATGATAATG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
11
Interacting miRNAs (#binding sites)
mmu-miR-153-3p(2), mmu-miR-350-3p(2), mmu-miR-16-5p(1), mmu-miR-34c-5p(1), mmu-miR-34a-5p(1), mmu-miR-322-5p(1), mmu-miR-335-5p(1), mmu-miR-320-3p(1), mmu-miR-214-3p(1), mmu-miR-182-5p(1), mmu-miR-34b-5p(1)
siRNAs for circular RNA silencing
Junction sequence
CTGAAGCTATACAAATATGCAAAAGG
siRNA sets
TTTGCATATTTGTATAGCT, TTTTGCATATTTGTATAGC, CTTTTGCATATTTGTATAG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCLRPPRC_817_ORF_1
1.1285
0.196559304
0.974403725
834
ORF sequence:
ATGCAAAAGGCCCTTGAGGTGAAAGCAAAATATGAGTCAGACATGGTTATTGGTGGCTATGCAGCATTAATAAATTTGTGCTGTCGACATGATAATGCAGAAGATGCGTGGAACTTGAAACAAGAAGTTGACCGCTTAGATGCTTCGGCTATTCTTGACACTGCCAAGTACGTAGCCCTTGTAAAAGTACTGGGAAAGCACAGCAGACTCCAAGATGCTATTAACATTCTAAAGGAGATGAAAGAGAAGGATGTTGTTATCAAAGATGCAACAGTCTTGTCCTTTTTCCACATCCTCAATGGTGCAGCTTTAAGAGGTGAAATTGAAACAGTAAAACAGCTGCATGAAGCCATCGTGACTCTTGGGTTGGCAAAGCCGTCCAGCAACATAAGCTTCCCGTTGGTCACTGTGCACCTGGAAAAGGGTGACTTACCTGCTGCTCTTGAAGCCAGCATTGCCTGCCATAAAAAATATAAAGTGTTACCCAGGATTCATGATGTCTTATGTAAGCTAGTAGAGAAAGGCGAGACTGATTTGATCCAGAAAGCAATGGACTTTGTGAGCCAAGAACAAGGGGAGATGACGATGCTCTACGACCTCTTCTTTGCTTTCCTGCAGACGGGGAATTACAAAGAAGCTAAGAAGATCATTGAGACTCCAGGCATTAGAGCTCGGCCTACAAGACTCCAGTGGTTTTGTGATCGATGCATTGCCAGTAATCAGGTTGAAGCTCTTGAGAAGTTGGTAGAGCTGACTGAGAAGCTGTTTGAGTGTGACAGAGACCAGATGTACTACAACTTACTGAAGCTATACAAATATGCAAAAGGCCCTTGA
Peptide sequence:
MQKALEVKAKYESDMVIGGYAALINLCCRHDNAEDAWNLKQEVDRLDASAILDTAKYVALVKVLGKHSRLQDAINILKEMKEKDVVIKDATVLSFFHILNGAALRGEIETVKQLHEAIVTLGLAKPSSNISFPLVTVHLEKGDLPAALEASIACHKKYKVLPRIHDVLCKLVEKGETDLIQKAMDFVSQEQGEMTMLYDLFFAFLQTGNYKEAKKIIETPGIRARPTRLQWFCDRCIASNQVEALEKLVELTEKLFECDRDQMYYNLLKLYKYAKGP
IRESfinder result
IRESfinder score
0.469196252
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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