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mmu_circIft52_491
Basic information of circular RNA
PanCircBase ID:
mmu_circIft52_491
mm39_Chr. Position ID:
chr2|162864294|162870022|+
Gene name:
Ift52
Transcript:
ENSMUST00000018002.13
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
5
Exon/intron indexes:
2,3,4,5,6
Exon/intron offsets:
0,975,2956,3513,5656
Genomic length:
5728
Exon/intron sizes in nt:
125,88,130,76,72
Flanking exon/introns:
chr2:162859453-162864294|chr2:162870022-162871654
Splice length:
491
Other database IDs:
circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_168549
Human Ortholog IDs:
Mature spliced Sequence:
GTAACCATGGAGAAGGAGCTGCGGAGTACCATTCTTTTCAATGCATACAAAAAGGAGGTGTTTACCACCAACACTGGCTACAAATCTTTGCAGAAAAGACTTCGGAGTAATTGGAAGATTCAGAGCTTGAAAGATGAAATCACTTCTGAGAAGTTAATTGGGGTGAAACTATGGATCACAGCTGGACCAAGGGAAAAGTTTACTGCTGCTGAATTTGAAGTCCTGAAGAAGTATCTTGACAGTGGTGGGGATATCCTTGTGATGCTGGGAGAAGGGGGAGAATCCAGATTTGATACCAATATTAACTTTCTTCTAGAGGAATACGGAATCATGGTTAATAATGATGCTGTGGTTAGAAACGTGTATTACAAGTACTTCCATCCTAAGGAAGCTCTGGTTTCAGACGGAGTGTTGAACAGAGAAATTAGCCGAGCTGCAGGAAAGGCTGTGCCTGGAGTCATTGATGAAGAGAACAGTGGGAACAATGCCCA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ATTAGCCGAGCTGCAGGAAA
59.75
TTGTAGCCAGTGTTGGTGGT
59.45
151
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AATTAGCCGAGCTGCAGGAA
59.75
TTGTAGCCAGTGTTGGTGGT
59.45
152
PCR template sequence:
CTCTGGTTTCAGACGGAGTGTTGAACAGAGAAATTAGCCGAGCTGCAGGAAAGGCTGTGCCTGGAGTCATTGATGAAGAGAACAGTGGGAACAATGCCCAGTAACCATGGAGAAGGAGCTGCGGAGTACCATTCTTTTCAATGCATACAAAAAGGAGGTGTTTACCACCAACACTGGCTACAAATCTTTGCAGAAAAGAC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
8
Interacting miRNAs (#binding sites)
mmu-miR-16-5p(1), mmu-miR-30e-5p(1), mmu-miR-322-5p(1), mmu-miR-30a-5p(1), mmu-miR-30d-5p(1), mmu-miR-207(1), mmu-miR-335-3p(1), mmu-miR-338-3p(1)
siRNAs for circular RNA silencing
Junction sequence
GGAACAATGCCCAGTAACCATGGAGA
siRNA sets
ATGGTTACTGGGCATTGTT, GGTTACTGGGCATTGTTCC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCIFT52_491_ORF_1
1.2064
0.248475807
0.820849409
489
ORF sequence:
ATGGAGAAGGAGCTGCGGAGTACCATTCTTTTCAATGCATACAAAAAGGAGGTGTTTACCACCAACACTGGCTACAAATCTTTGCAGAAAAGACTTCGGAGTAATTGGAAGATTCAGAGCTTGAAAGATGAAATCACTTCTGAGAAGTTAATTGGGGTGAAACTATGGATCACAGCTGGACCAAGGGAAAAGTTTACTGCTGCTGAATTTGAAGTCCTGAAGAAGTATCTTGACAGTGGTGGGGATATCCTTGTGATGCTGGGAGAAGGGGGAGAATCCAGATTTGATACCAATATTAACTTTCTTCTAGAGGAATACGGAATCATGGTTAATAATGATGCTGTGGTTAGAAACGTGTATTACAAGTACTTCCATCCTAAGGAAGCTCTGGTTTCAGACGGAGTGTTGAACAGAGAAATTAGCCGAGCTGCAGGAAAGGCTGTGCCTGGAGTCATTGATGAAGAGAACAGTGGGAACAATGCCCAGTAA
Peptide sequence:
MEKELRSTILFNAYKKEVFTTNTGYKSLQKRLRSNWKIQSLKDEITSEKLIGVKLWITAGPREKFTAAEFEVLKKYLDSGGDILVMLGEGGESRFDTNINFLLEEYGIMVNNDAVVRNVYYKYFHPKEALVSDGVLNREISRAAGKAVPGVIDEENSGNNAQ
IRESfinder result
IRESfinder score
0.641109705
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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