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mmu_circ4833439L19Rik_519
Basic information of circular RNA
PanCircBase ID:
mmu_circ4833439L19Rik_519
mm39_Chr. Position ID:
chr13|54704339|54712085|-
Gene name:
4833439L19Rik
Transcript:
ENSMUST00000026989.15
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
6,5,4,3
Exon/intron offsets:
0,2671,5166,7658
Genomic length:
7746
Exon/intron sizes in nt:
125,127,179,88
Flanking exon/introns:
chr13:54701117-54704339|chr13:54712085-54712327
Splice length:
519
Other database IDs:
circAtlas: hsa-KIAA1191_0012
Human Ortholog IDs:
Mature spliced Sequence:
GTGGAAGGGACTCAGCTCCGAATTACGTATAGAAAAAAACACCTGGATCCCTGTCTTTCAATGGCTTCAAGACAACCAGAAGTGCCTGCTCTTGCTCCCAGCGGGCCTCTAGGCAAGATGTCCCTGCCCATCGGGATGTGCCGTCGGGCATTCAGCTATGATGATGCCCTAGAGGACCCTGCGCCCATGACTCCTCCTCCATCGGACATGGGCAGCATCCCCTGGAAGCCAGTGATTCCAGAGCGCAAGTATCAGCATCTTGACAAGACAGAGGAGGGCGCGGCCAGTGTCTCTTCCCTTGCTGTGACTCCATCACCAGCCACTGACAGTTCAGACAAGGCCCCTGTGGTGAAGGCTAAAGCTACCCATGTCATCATGAGTTCCCTGATCACAAAGCAGACCCAGGAGAGCATCCAGCGTTTTGAACAACAGGCAGGACTGAGAGATGCTGGCTACACACCCCATAAGGGCCTTACCACGGAGGAGACCAAGTACCTTCGAGTGGCAGAAGCACTCCAT
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TACCACGGAGGAGACCAAGT
59.89
CAAGAGCAGGCACTTCTGGT
60.25
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CCATAAGGGCCTTACCACGG
60.18
AGAGCAGGCACTTCTGGTTG
60.25
150
PCR template sequence:
TTTTGAACAACAGGCAGGACTGAGAGATGCTGGCTACACACCCCATAAGGGCCTTACCACGGAGGAGACCAAGTACCTTCGAGTGGCAGAAGCACTCCATGTGGAAGGGACTCAGCTCCGAATTACGTATAGAAAAAAACACCTGGATCCCTGTCTTTCAATGGCTTCAAGACAACCAGAAGTGCCTGCTCTTGCTCCCA
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-138-5p(1), mmu-miR-1199-5p(1), mmu-miR-1904(1), mmu-miR-338-3p(1), mmu-miR-542-5p(1)
siRNAs for circular RNA silencing
Junction sequence
AGAAGCACTCCATGTGGAAGGGACTC
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRC4833439L19RIK_519_ORF_1
1.1573
0.36229616
0.99560828
978
ORF sequence:
ATGGCTTCAAGACAACCAGAAGTGCCTGCTCTTGCTCCCAGCGGGCCTCTAGGCAAGATGTCCCTGCCCATCGGGATGTGCCGTCGGGCATTCAGCTATGATGATGCCCTAGAGGACCCTGCGCCCATGACTCCTCCTCCATCGGACATGGGCAGCATCCCCTGGAAGCCAGTGATTCCAGAGCGCAAGTATCAGCATCTTGACAAGACAGAGGAGGGCGCGGCCAGTGTCTCTTCCCTTGCTGTGACTCCATCACCAGCCACTGACAGTTCAGACAAGGCCCCTGTGGTGAAGGCTAAAGCTACCCATGTCATCATGAGTTCCCTGATCACAAAGCAGACCCAGGAGAGCATCCAGCGTTTTGAACAACAGGCAGGACTGAGAGATGCTGGCTACACACCCCATAAGGGCCTTACCACGGAGGAGACCAAGTACCTTCGAGTGGCAGAAGCACTCCATGTGGAAGGGACTCAGCTCCGAATTACGTATAGAAAAAAACACCTGGATCCCTGTCTTTCAATGGCTTCAAGACAACCAGAAGTGCCTGCTCTTGCTCCCAGCGGGCCTCTAGGCAAGATGTCCCTGCCCATCGGGATGTGCCGTCGGGCATTCAGCTATGATGATGCCCTAGAGGACCCTGCGCCCATGACTCCTCCTCCATCGGACATGGGCAGCATCCCCTGGAAGCCAGTGATTCCAGAGCGCAAGTATCAGCATCTTGACAAGACAGAGGAGGGCGCGGCCAGTGTCTCTTCCCTTGCTGTGACTCCATCACCAGCCACTGACAGTTCAGACAAGGCCCCTGTGGTGAAGGCTAAAGCTACCCATGTCATCATGAGTTCCCTGATCACAAAGCAGACCCAGGAGAGCATCCAGCGTTTTGAACAACAGGCAGGACTGAGAGATGCTGGCTACACACCCCATAAGGGCCTTACCACGGAGGAGACCAAGTACCTTCGAGTGGCAGAAGCACTCCAT
Peptide sequence:
MASRQPEVPALAPSGPLGKMSLPIGMCRRAFSYDDALEDPAPMTPPPSDMGSIPWKPVIPERKYQHLDKTEEGAASVSSLAVTPSPATDSSDKAPVVKAKATHVIMSSLITKQTQESIQRFEQQAGLRDAGYTPHKGLTTEETKYLRVAEALHVEGTQLRITYRKKHLDPCLSMASRQPEVPALAPSGPLGKMSLPIGMCRRAFSYDDALEDPAPMTPPPSDMGSIPWKPVIPERKYQHLDKTEEGAASVSSLAVTPSPATDSSDKAPVVKAKATHVIMSSLITKQTQESIQRFEQQAGLRDAGYTPHKGLTTEETKYLRVAEALH
IRESfinder result
IRESfinder score
0.398946887
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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