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mmu_circLrp5_610
Basic information of circular RNA
PanCircBase ID:
mmu_circLrp5_610
mm39_Chr. Position ID:
chr19|3652234|3655494|-
Gene name:
Lrp5
Transcript:
ENSMUST00000025856.17
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
16,15,14
Exon/intron offsets:
0,1767,3051
Genomic length:
3260
Exon/intron sizes in nt:
21,01,91,209
Flanking exon/introns:
chr19:3650798-3652234|chr19:3655494-3660038
Splice length:
610
Other database IDs:
CIRCpedia: MMU_CIRCpedia_17996, circAtlas: mmu-Lrp5_0004
circBase: hsa_circ_0023216, circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_5293
Human Ortholog IDs:
Mature spliced Sequence:
CCCTCCATGCTGACCTCTCCCAGCCAAAGCCTGAGCCCAGACAGACAGCCACACGACCTCAGCATTGACATCTACAGCCGGACACTGTTCTGGACCTGTGAGGCCACCAACACTATCAATGTCCACCGGCTGGATGGGGATGCCATGGGAGTGGTGCTTCGAGGGGACCGTGACAAGCCAAGGGCCATTGCTGTCAATGCTGAGCGAGGGTACATGTACTTTACCAACATGCAGGACCATGCTGCCAAGATCGAGCGAGCCTCCCTGGATGGCACAGAGCGGGAGGTCCTCTTCACCACAGGCCTCATCCGTCCCGTGGCCCTTGTGGTGGACAATGCTCTGGGCAAGCTCTTCTGGGTGGATGCCGACCTAAAGCGAATCGAAAGCTGTGACCTCTCTGGGGCCAACCGCCTGACCCTGGAAGATGCCAACATCGTACAGCCAGTAGGTCTGACAGTGCTGGGCAGGCACCTCTACTGGATCGACCGCCAGCAGCAGATGATCGAGCGCGTGGAGAAGACCACTGGGGACAAGCGGACTAGGGTTCAGGGCCGTGTCACCCACCTGACAGGCATCCATGCCGTGGAGGAAGTCAGCCTGGAGGAGTTCT
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CAAGCGGACTAGGGTTCAGG
60.11
CAGAACAGTGTCCGGCTGTA
59.68
172
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GGACAAGCGGACTAGGGTTC
60.11
CAGAACAGTGTCCGGCTGTA
59.68
175
PCR template sequence:
GTGGAGAAGACCACTGGGGACAAGCGGACTAGGGTTCAGGGCCGTGTCACCCACCTGACAGGCATCCATGCCGTGGAGGAAGTCAGCCTGGAGGAGTTCTCCCTCCATGCTGACCTCTCCCAGCCAAAGCCTGAGCCCAGACAGACAGCCACACGACCTCAGCATTGACATCTACAGCCGGACACTGTTCTGGACCTGTG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
5
Interacting miRNAs (#binding sites)
mmu-miR-207(2), mmu-miR-103-3p(1), mmu-miR-24-3p(1), mmu-miR-107-3p(1), mmu-miR-673-5p(1)
siRNAs for circular RNA silencing
Junction sequence
CTGGAGGAGTTCTCCCTCCATGCTGA
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCLRP5_610_ORF_1
1.1966
0.544146918
0.982497765
672
ORF sequence:
ATGCTGACCTCTCCCAGCCAAAGCCTGAGCCCAGACAGACAGCCACACGACCTCAGCATTGACATCTACAGCCGGACACTGTTCTGGACCTGTGAGGCCACCAACACTATCAATGTCCACCGGCTGGATGGGGATGCCATGGGAGTGGTGCTTCGAGGGGACCGTGACAAGCCAAGGGCCATTGCTGTCAATGCTGAGCGAGGGTACATGTACTTTACCAACATGCAGGACCATGCTGCCAAGATCGAGCGAGCCTCCCTGGATGGCACAGAGCGGGAGGTCCTCTTCACCACAGGCCTCATCCGTCCCGTGGCCCTTGTGGTGGACAATGCTCTGGGCAAGCTCTTCTGGGTGGATGCCGACCTAAAGCGAATCGAAAGCTGTGACCTCTCTGGGGCCAACCGCCTGACCCTGGAAGATGCCAACATCGTACAGCCAGTAGGTCTGACAGTGCTGGGCAGGCACCTCTACTGGATCGACCGCCAGCAGCAGATGATCGAGCGCGTGGAGAAGACCACTGGGGACAAGCGGACTAGGGTTCAGGGCCGTGTCACCCACCTGACAGGCATCCATGCCGTGGAGGAAGTCAGCCTGGAGGAGTTCTCCCTCCATGCTGACCTCTCCCAGCCAAAGCCTGAGCCCAGACAGACAGCCACACGACCTCAGCATTGA
Peptide sequence:
MLTSPSQSLSPDRQPHDLSIDIYSRTLFWTCEATNTINVHRLDGDAMGVVLRGDRDKPRAIAVNAERGYMYFTNMQDHAAKIERASLDGTEREVLFTTGLIRPVALVVDNALGKLFWVDADLKRIESCDLSGANRLTLEDANIVQPVGLTVLGRHLYWIDRQQQMIERVEKTTGDKRTRVQGRVTHLTGIHAVEEVSLEEFSLHADLSQPKPEPRQTATRPQH
IRESfinder result
IRESfinder score
0.215752205
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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