top of page
mmu_circPlekha7_567
Basic information of circular RNA
PanCircBase ID:
mmu_circPlekha7_567
mm39_Chr. Position ID:
chr7|115769896|115780520|-
Gene name:
Plekha7
Transcript:
ENSMUST00000182834.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
5
Exon/intron indexes:
7,6,5,4,3
Exon/intron offsets:
0,5050,6224,9732,10512
Genomic length:
10624
Exon/intron sizes in nt:
1,76,10,17,31,05,112
Flanking exon/introns:
chr7:115763731-115769896|chr7:115780520-115788504
Splice length:
567
Other database IDs:
CIRCpedia: MMU_CIRCpedia_3967, circAtlas: mmu-Plekha7_0001
circBase: hsa_circ_0021369, circAtlas: hsa-PLEKHA7_0001, CIRCpedia: HSA_CIRCpedia_3838
Human Ortholog IDs:
Mature spliced Sequence:
GCCACACCCACATATGTCGAAGCCAGAGAGAAACCAAAGACCGTCCAGCATGGTCAGTGAGACATCCACAGCTGGGACCACGTCCACCCTGGAGGCCAAGCCTGGACCCAAGATTGTCAAGTCCAGCAGTAAAGTGCACAGCTTCGGGAAGAGGGACCAGGCCATTCGGAGGAACCTTAATGTTCCGGTGGTGGTGAGGGGCTGGCTACACAAGCAGGACAGCTCCGGGATGAGGCTGTGGAAAAGACGCTGGTTTGTGCTGGCTGATTACTGCTTGTTTTATTATAAAGACAGCCGAGAGGAAGCTGTTCTCGGGAGCATCCCTCTGCCCAGCTATGTCATCTCCCCAGTGGCCCCAGAGGATCGAATAAGCCGCAAGTATTCCTTTAAGGCTGTGCATACGGGGATGAGGGCACTCATCTACAGCACCACCACAGCGGGCTCTCAGATGGAGCACTCGGGCATGAGGACCTACTACTTCAGTGCCGACACCCTGGAGGACATGAACGCCTGGGTCAGGGCCATGAACCAGGCTGCGCAGGTGCTGTCTCGCTCATCGCTGAGGAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CACCCTGGAGGACATGAACG
60.39
TGTCTCACTGACCATGCTGG
59.68
142
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CACCCTGGAGGACATGAACG
60.39
TCTCACTGACCATGCTGGAC
59.39
140
PCR template sequence:
GGACCTACTACTTCAGTGCCGACACCCTGGAGGACATGAACGCCTGGGTCAGGGCCATGAACCAGGCTGCGCAGGTGCTGTCTCGCTCATCGCTGAGGAGGCCACACCCACATATGTCGAAGCCAGAGAGAAACCAAAGACCGTCCAGCATGGTCAGTGAGACATCCACAGCTGGGACCACGTCCACCCTGGAGGCCAAG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
9
Interacting miRNAs (#binding sites)
mmu-miR-9-5p(1), mmu-let-7a-5p(1), mmu-let-7b-5p(1), mmu-let-7c-5p(1), mmu-miR-328-3p(1), mmu-miR-298-5p(1), mmu-let-7d-5p(1), mmu-miR-29b-1-5p(1), mmu-miR-29b-2-5p(1)
siRNAs for circular RNA silencing
Junction sequence
CATCGCTGAGGAGGCCACACCCACAT
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCPLEKHA7_567_ORF_1
1.1081
0.354698388
0.998196697
1119
ORF sequence:
ATGTCGAAGCCAGAGAGAAACCAAAGACCGTCCAGCATGGTCAGTGAGACATCCACAGCTGGGACCACGTCCACCCTGGAGGCCAAGCCTGGACCCAAGATTGTCAAGTCCAGCAGTAAAGTGCACAGCTTCGGGAAGAGGGACCAGGCCATTCGGAGGAACCTTAATGTTCCGGTGGTGGTGAGGGGCTGGCTACACAAGCAGGACAGCTCCGGGATGAGGCTGTGGAAAAGACGCTGGTTTGTGCTGGCTGATTACTGCTTGTTTTATTATAAAGACAGCCGAGAGGAAGCTGTTCTCGGGAGCATCCCTCTGCCCAGCTATGTCATCTCCCCAGTGGCCCCAGAGGATCGAATAAGCCGCAAGTATTCCTTTAAGGCTGTGCATACGGGGATGAGGGCACTCATCTACAGCACCACCACAGCGGGCTCTCAGATGGAGCACTCGGGCATGAGGACCTACTACTTCAGTGCCGACACCCTGGAGGACATGAACGCCTGGGTCAGGGCCATGAACCAGGCTGCGCAGGTGCTGTCTCGCTCATCGCTGAGGAGGCCACACCCACATATGTCGAAGCCAGAGAGAAACCAAAGACCGTCCAGCATGGTCAGTGAGACATCCACAGCTGGGACCACGTCCACCCTGGAGGCCAAGCCTGGACCCAAGATTGTCAAGTCCAGCAGTAAAGTGCACAGCTTCGGGAAGAGGGACCAGGCCATTCGGAGGAACCTTAATGTTCCGGTGGTGGTGAGGGGCTGGCTACACAAGCAGGACAGCTCCGGGATGAGGCTGTGGAAAAGACGCTGGTTTGTGCTGGCTGATTACTGCTTGTTTTATTATAAAGACAGCCGAGAGGAAGCTGTTCTCGGGAGCATCCCTCTGCCCAGCTATGTCATCTCCCCAGTGGCCCCAGAGGATCGAATAAGCCGCAAGTATTCCTTTAAGGCTGTGCATACGGGGATGAGGGCACTCATCTACAGCACCACCACAGCGGGCTCTCAGATGGAGCACTCGGGCATGAGGACCTACTACTTCAGTGCCGACACCCTGGAGGACATGAACGCCTGGGTCAGGGCCATGAACCAGGCTGCGCAGGTGCTGTCTCGCTCATCGCTGAGG
Peptide sequence:
MSKPERNQRPSSMVSETSTAGTTSTLEAKPGPKIVKSSSKVHSFGKRDQAIRRNLNVPVVVRGWLHKQDSSGMRLWKRRWFVLADYCLFYYKDSREEAVLGSIPLPSYVISPVAPEDRISRKYSFKAVHTGMRALIYSTTTAGSQMEHSGMRTYYFSADTLEDMNAWVRAMNQAAQVLSRSSLRRPHPHMSKPERNQRPSSMVSETSTAGTTSTLEAKPGPKIVKSSSKVHSFGKRDQAIRRNLNVPVVVRGWLHKQDSSGMRLWKRRWFVLADYCLFYYKDSREEAVLGSIPLPSYVISPVAPEDRISRKYSFKAVHTGMRALIYSTTTAGSQMEHSGMRTYYFSADTLEDMNAWVRAMNQAAQVLSRSSLR
IRESfinder result
IRESfinder score
0.290598271
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
bottom of page