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mmu_circUtp4_1008
Basic information of circular RNA
PanCircBase ID:
mmu_circUtp4_1008
mm39_Chr. Position ID:
chr8|107627477|107640136|+
Gene name:
Utp4
Transcript:
ENSMUST00000047629.7
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
8
Exon/intron indexes:
5,6,7,8,9,10,11,12
Exon/intron offsets:
0,3387,5279,5544,7359,10096,11380,12502
Genomic length:
12659
Exon/intron sizes in nt:
9,02,12,17,29,29,76,51,00,000
Flanking exon/introns:
chr8:107625158-107627477|chr8:107640136-107642787
Splice length:
1008
Other database IDs:
circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_167616
Human Ortholog IDs:
Mature spliced Sequence:
GTCGGATTCTCAGTCTCTGCTGGCACCCTGCGGGTACCCACGTCGCAGCTGGTTCCTTAGACTACATTAGCGTGTTTGATGTCAAATCAGGGAGCATAATTCGTAAGATGGTTTTAGATAGGCAACACCTGGGAGTGACTAAGTCCAGGTGCATAGTGTGGGGTGTTGCCTTCTTGTCCGACGGCACTGTCATAAGTGTGGACTCTGTTGGAAAGGTGCAGTTGTGGGACTCTGCTACTGGGACACTCGTTAAGAGTCATCTCGTCGCAAATGCTGATGTGCAGTCTATTGCTGTTGCTGATCAAGAAGACAGTTTTGTGGTGGGCACCGCCGAGGGCACGGTATTCCATTTCCAGCTGGTGTCCATGACTTCCAACAGCAGTGAGAAGCAGTGGGTGCGGACGAAACCGTTCCAGCATCACACTCATGACGTGCGTGCTGTGGCCCACAGCCCAACAGCCCTGATCTCAGGAGGCACCGACACCCACCTGGTTATTCGGCCTCTCATGGAGAGAGTGGAGGTAAAGAATTACGATGCTGCTCTCCGAAAGATCACGTTCCCCCATCGGCGTCTCATTTCCTGTTCAAAAAGAAGGCAGCTTCTCCTTTTCCAGTTCGCGCATCACTTGGAACTGTGGAGACTAGGATCCACATCTGCAACAGGCAAGAACGGAGATACTCTTCCACTCTCTAAAAACGCAGATCATCTCCTGCACCTCAAGACAAAGGGCCCTGAGAACATTATCTGCAGCTGTGTCTCCCCGTGTGGAAGCTGGATAGCCTATTCTACAGCGTCTCGCTTTTTTCTCTATCGATTGAAATATGAACGCGATAACATAAGCCTCCAAAGAGTTTCCAAATTGCCATCATTCCTGCGCTCTGCCCTTCATATTCTGTTTTCTGAAGATTCAACAAAGCTCCTTGTGGCATCCAATCAAGGGTCTCTGCATATTGTTCATCTGTCGGAAGGAAGCTTCAAGCACTTGCATACTTTCCAGCCGCAGTCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AAGCTCCTTGTGGCATCCAA
59.89
TCTAAGGAACCAGCTGCGAC
59.75
155
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AAGCTCCTTGTGGCATCCAA
59.89
GTCTAAGGAACCAGCTGCGA
59.75
156
PCR template sequence:
TCAACAAAGCTCCTTGTGGCATCCAATCAAGGGTCTCTGCATATTGTTCATCTGTCGGAAGGAAGCTTCAAGCACTTGCATACTTTCCAGCCGCAGTCAGGTCGGATTCTCAGTCTCTGCTGGCACCCTGCGGGTACCCACGTCGCAGCTGGTTCCTTAGACTACATTAGCGTGTTTGATGTCAAATCAGGGAGCATAAT
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-16-5p(1), mmu-miR-15a-5p(1), mmu-miR-103-3p(1), mmu-miR-322-5p(1), mmu-miR-15b-5p(1), mmu-miR-501-3p(1), mmu-miR-107-3p(1), mmu-miR-342-5p(1), mmu-miR-300-3p(1), mmu-miR-574-5p(1), mmu-miR-338-3p(1)
siRNAs for circular RNA silencing
Junction sequence
CAGCCGCAGTCAGGTCGGATTCTCAG
siRNA sets
TGAGAATCCGACCTGACTG, GAGAATCCGACCTGACTGC, AGAATCCGACCTGACTGCG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCUTP4_1008_ORF_1
0.908
0.153245134
0.999979471
1908
ORF sequence:
ATGGTTTTAGATAGGCAACACCTGGGAGTGACTAAGTCCAGGTGCATAGTGTGGGGTGTTGCCTTCTTGTCCGACGGCACTGTCATAAGTGTGGACTCTGTTGGAAAGGTGCAGTTGTGGGACTCTGCTACTGGGACACTCGTTAAGAGTCATCTCGTCGCAAATGCTGATGTGCAGTCTATTGCTGTTGCTGATCAAGAAGACAGTTTTGTGGTGGGCACCGCCGAGGGCACGGTATTCCATTTCCAGCTGGTGTCCATGACTTCCAACAGCAGTGAGAAGCAGTGGGTGCGGACGAAACCGTTCCAGCATCACACTCATGACGTGCGTGCTGTGGCCCACAGCCCAACAGCCCTGATCTCAGGAGGCACCGACACCCACCTGGTTATTCGGCCTCTCATGGAGAGAGTGGAGGTAAAGAATTACGATGCTGCTCTCCGAAAGATCACGTTCCCCCATCGGCGTCTCATTTCCTGTTCAAAAAGAAGGCAGCTTCTCCTTTTCCAGTTCGCGCATCACTTGGAACTGTGGAGACTAGGATCCACATCTGCAACAGGCAAGAACGGAGATACTCTTCCACTCTCTAAAAACGCAGATCATCTCCTGCACCTCAAGACAAAGGGCCCTGAGAACATTATCTGCAGCTGTGTCTCCCCGTGTGGAAGCTGGATAGCCTATTCTACAGCGTCTCGCTTTTTTCTCTATCGATTGAAATATGAACGCGATAACATAAGCCTCCAAAGAGTTTCCAAATTGCCATCATTCCTGCGCTCTGCCCTTCATATTCTGTTTTCTGAAGATTCAACAAAGCTCCTTGTGGCATCCAATCAAGGGTCTCTGCATATTGTTCATCTGTCGGAAGGAAGCTTCAAGCACTTGCATACTTTCCAGCCGCAGTCAGGTCGGATTCTCAGTCTCTGCTGGCACCCTGCGGGTACCCACGTCGCAGCTGGTTCCTTAGACTACATTAGCGTGTTTGATGTCAAATCAGGGAGCATAATTCGTAAGATGGTTTTAGATAGGCAACACCTGGGAGTGACTAAGTCCAGGTGCATAGTGTGGGGTGTTGCCTTCTTGTCCGACGGCACTGTCATAAGTGTGGACTCTGTTGGAAAGGTGCAGTTGTGGGACTCTGCTACTGGGACACTCGTTAAGAGTCATCTCGTCGCAAATGCTGATGTGCAGTCTATTGCTGTTGCTGATCAAGAAGACAGTTTTGTGGTGGGCACCGCCGAGGGCACGGTATTCCATTTCCAGCTGGTGTCCATGACTTCCAACAGCAGTGAGAAGCAGTGGGTGCGGACGAAACCGTTCCAGCATCACACTCATGACGTGCGTGCTGTGGCCCACAGCCCAACAGCCCTGATCTCAGGAGGCACCGACACCCACCTGGTTATTCGGCCTCTCATGGAGAGAGTGGAGGTAAAGAATTACGATGCTGCTCTCCGAAAGATCACGTTCCCCCATCGGCGTCTCATTTCCTGTTCAAAAAGAAGGCAGCTTCTCCTTTTCCAGTTCGCGCATCACTTGGAACTGTGGAGACTAGGATCCACATCTGCAACAGGCAAGAACGGAGATACTCTTCCACTCTCTAAAAACGCAGATCATCTCCTGCACCTCAAGACAAAGGGCCCTGAGAACATTATCTGCAGCTGTGTCTCCCCGTGTGGAAGCTGGATAGCCTATTCTACAGCGTCTCGCTTTTTTCTCTATCGATTGAAATATGAACGCGATAACATAAGCCTCCAAAGAGTTTCCAAATTGCCATCATTCCTGCGCTCTGCCCTTCATATTCTGTTTTCTGAAGATTCAACAAAGCTCCTTGTGGCATCCAATCAAGGGTCTCTGCATATTGTTCATCTGTCGGAAGGAAGCTTCAAGCACTTGCATACTTTCCAGCCGCAGTCA
Peptide sequence:
MVLDRQHLGVTKSRCIVWGVAFLSDGTVISVDSVGKVQLWDSATGTLVKSHLVANADVQSIAVADQEDSFVVGTAEGTVFHFQLVSMTSNSSEKQWVRTKPFQHHTHDVRAVAHSPTALISGGTDTHLVIRPLMERVEVKNYDAALRKITFPHRRLISCSKRRQLLLFQFAHHLELWRLGSTSATGKNGDTLPLSKNADHLLHLKTKGPENIICSCVSPCGSWIAYSTASRFFLYRLKYERDNISLQRVSKLPSFLRSALHILFSEDSTKLLVASNQGSLHIVHLSEGSFKHLHTFQPQSGRILSLCWHPAGTHVAAGSLDYISVFDVKSGSIIRKMVLDRQHLGVTKSRCIVWGVAFLSDGTVISVDSVGKVQLWDSATGTLVKSHLVANADVQSIAVADQEDSFVVGTAEGTVFHFQLVSMTSNSSEKQWVRTKPFQHHTHDVRAVAHSPTALISGGTDTHLVIRPLMERVEVKNYDAALRKITFPHRRLISCSKRRQLLLFQFAHHLELWRLGSTSATGKNGDTLPLSKNADHLLHLKTKGPENIICSCVSPCGSWIAYSTASRFFLYRLKYERDNISLQRVSKLPSFLRSALHILFSEDSTKLLVASNQGSLHIVHLSEGSFKHLHTFQPQS
IRESfinder result
IRESfinder score
0.547241709
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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