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mmu_circLars_709
Basic information of circular RNA
PanCircBase ID:
mmu_circLars_709
mm39_Chr. Position ID:
chr18|42358818|42363092|-
Gene name:
Lars
Transcript:
ENSMUST00000097590.5
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
7
Exon/intron indexes:
22,21,20,19,18,17,16
Exon/intron offsets:
0,1482,2252,2904,3875,4037,4188
Genomic length:
4274
Exon/intron sizes in nt:
64,58,213,139,83,66,86
Flanking exon/introns:
chr18:42354727-42358818|chr18:42363092-42366864
Splice length:
709
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GGAGATGCGCTTATCTACATGGAGCCAGAAAAACAAGTGATGTCGAGGTCTGCAGATGAGTGCGTCGTGGCCCTGTGTGACCAGTGGTACTTGGATTATGGAGATGAGAACTGGAAGAAACAGACATTTCAGTGCCTGAAGAACATGGAAACATTCTGCGAGGAGAGCAGGAAGAATTTTGAAGCTTCCTTAGACTGGCTACAAGAACATGCTTGCTCAAGAACGTACGGTTTAGGCACTCGTCTGCCTTGGGATGAACAGTGGTTAATCGAATCTCTCTCGGATTCCACAATTTACATGGCGTTCTACACAGTGGCACACCTGCTGCAGGGGGGTGACCTGAATGGGCAGGCGGAGTCTCCACTGGGCATCAGACCCCAGCAGATGACAAAGGACGTTTGGGATTATGTGTTCTTCAAGGATGCTCCATTTCCTAAGACTCAGATCCCAAAGGAGAAGCTGGATCAGTTGAAGCAGGAGTTTGAGTTTTGGTACCCAGTGGACCTTCGAGCCTCTGGCAAGGATCTGATTCCAAATCATCTTTCATATTACATTTACAACCATGTGGCCATGTGGCCAGAGCAAAGTGACAAGTGGCCCGTGTCTGTCCGAGCAAATGGACACCTGCTGCTCAACTCGGAGAAGATGTCAAAATCTACGGGCAACTTCCTCACTTTGAGCCAAGCTGTTGACAAATTTTCAGCTGACG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGCTGCTCAACTCGGAGAAG
60.04
GTACCACTGGTCACACAGGG
59.97
174
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CTGCTGCTCAACTCGGAGAA
60.04
GTACCACTGGTCACACAGGG
59.97
175
PCR template sequence:
CGAGCAAATGGACACCTGCTGCTCAACTCGGAGAAGATGTCAAAATCTACGGGCAACTTCCTCACTTTGAGCCAAGCTGTTGACAAATTTTCAGCTGACGGGAGATGCGCTTATCTACATGGAGCCAGAAAAACAAGTGATGTCGAGGTCTGCAGATGAGTGCGTCGTGGCCCTGTGTGACCAGTGGTACTTGGATTATG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
7
Interacting miRNAs (#binding sites)
mmu-miR-16-5p(1), mmu-miR-15a-5p(1), mmu-miR-203-3p(1), mmu-miR-149-5p(1), mmu-miR-362-5p(1), mmu-miR-377-3p(1), mmu-miR-207(1)
siRNAs for circular RNA silencing
Junction sequence
TTTTCAGCTGACGGGAGATGCGCTTA
siRNA sets
AAGCGCATCTCCCGTCAGC, TAAGCGCATCTCCCGTCAG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCLARS_709_ORF_1
0.84
0.240229925
0.935852249
750
ORF sequence:
ATGGAGCCAGAAAAACAAGTGATGTCGAGGTCTGCAGATGAGTGCGTCGTGGCCCTGTGTGACCAGTGGTACTTGGATTATGGAGATGAGAACTGGAAGAAACAGACATTTCAGTGCCTGAAGAACATGGAAACATTCTGCGAGGAGAGCAGGAAGAATTTTGAAGCTTCCTTAGACTGGCTACAAGAACATGCTTGCTCAAGAACGTACGGTTTAGGCACTCGTCTGCCTTGGGATGAACAGTGGTTAATCGAATCTCTCTCGGATTCCACAATTTACATGGCGTTCTACACAGTGGCACACCTGCTGCAGGGGGGTGACCTGAATGGGCAGGCGGAGTCTCCACTGGGCATCAGACCCCAGCAGATGACAAAGGACGTTTGGGATTATGTGTTCTTCAAGGATGCTCCATTTCCTAAGACTCAGATCCCAAAGGAGAAGCTGGATCAGTTGAAGCAGGAGTTTGAGTTTTGGTACCCAGTGGACCTTCGAGCCTCTGGCAAGGATCTGATTCCAAATCATCTTTCATATTACATTTACAACCATGTGGCCATGTGGCCAGAGCAAAGTGACAAGTGGCCCGTGTCTGTCCGAGCAAATGGACACCTGCTGCTCAACTCGGAGAAGATGTCAAAATCTACGGGCAACTTCCTCACTTTGAGCCAAGCTGTTGACAAATTTTCAGCTGACGGGAGATGCGCTTATCTACATGGAGCCAGAAAAACAAGTGATGTCGAGGTCTGCAGATGA
Peptide sequence:
MEPEKQVMSRSADECVVALCDQWYLDYGDENWKKQTFQCLKNMETFCEESRKNFEASLDWLQEHACSRTYGLGTRLPWDEQWLIESLSDSTIYMAFYTVAHLLQGGDLNGQAESPLGIRPQQMTKDVWDYVFFKDAPFPKTQIPKEKLDQLKQEFEFWYPVDLRASGKDLIPNHLSYYIYNHVAMWPEQSDKWPVSVRANGHLLLNSEKMSKSTGNFLTLSQAVDKFSADGRCAYLHGARKTSDVEVCR
IRESfinder result
IRESfinder score
0.502903291
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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