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mmu_circCtif_332
Basic information of circular RNA
PanCircBase ID:
mmu_circCtif_332
mm39_Chr. Position ID:
chr18|75698074|75744850|-
Gene name:
Ctif
Transcript:
ENSMUST00000165559.3
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
7,6,5,4
Exon/intron offsets:
0,40624,45665,46702
Genomic length:
46776
Exon/intron sizes in nt:
77,76,105,74
Flanking exon/introns:
chr18:75654940-75698074|chr18:75744850-75757299
Splice length:
332
Other database IDs:
circAtlas: mmu-Ctif_0004
circBase: hsa_circ_0047624, circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_23906
Human Ortholog IDs:
Mature spliced Sequence:
AATGGCAACAAGGACAACTCCCTGGACATGCTGGGCACAGATATCTGGGCCGCCAATACCTTTGATTCCTTCAGTGGTGCCACCTGGGACCTGCAGCCTGAAAAGCTGGACTTCACCCAGTTCCATCGGAAGGTCCGCCACACACCCAAGCAGCCCCTGCCACACATCGACAGAGAAGGGTGTGGAAAGGGAAAGCTGGAAGATGGAGATGGTATCAGCCTGAATGACATTGAGAAGGTCCTCCCGACCTGGCAGGGCTACCATCCGATGCCCCACGAAGCAGAGATTGCACATACCAAGAAGTTGTTCCGAAGGAGGAGAAATGACCGAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CTACCATCCGATGCCCCAC
59.93
GGTGGCACCACTGAAGGAAT
60.25
159
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GCCCCACGAAGCAGAGATT
60.08
GGTGGCACCACTGAAGGAAT
60.25
147
PCR template sequence:
AGAAGGTCCTCCCGACCTGGCAGGGCTACCATCCGATGCCCCACGAAGCAGAGATTGCACATACCAAGAAGTTGTTCCGAAGGAGGAGAAATGACCGAAGAATGGCAACAAGGACAACTCCCTGGACATGCTGGGCACAGATATCTGGGCCGCCAATACCTTTGATTCCTTCAGTGGTGCCACCTGGGACCTGCAGCCTG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
3
Interacting miRNAs (#binding sites)
mmu-miR-211-5p(1), mmu-miR-204-5p(1), mmu-miR-338-3p(1)
siRNAs for circular RNA silencing
Junction sequence
GAAATGACCGAAGAATGGCAACAAGG
siRNA sets
TTGTTGCCATTCTTCGGTC, CCTTGTTGCCATTCTTCGG, CTTGTTGCCATTCTTCGGT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCCTIF_332_ORF_1
0.6557
0.213899218
0.655986189
528
ORF sequence:
ATGCTGGGCACAGATATCTGGGCCGCCAATACCTTTGATTCCTTCAGTGGTGCCACCTGGGACCTGCAGCCTGAAAAGCTGGACTTCACCCAGTTCCATCGGAAGGTCCGCCACACACCCAAGCAGCCCCTGCCACACATCGACAGAGAAGGGTGTGGAAAGGGAAAGCTGGAAGATGGAGATGGTATCAGCCTGAATGACATTGAGAAGGTCCTCCCGACCTGGCAGGGCTACCATCCGATGCCCCACGAAGCAGAGATTGCACATACCAAGAAGTTGTTCCGAAGGAGGAGAAATGACCGAAGAATGGCAACAAGGACAACTCCCTGGACATGCTGGGCACAGATATCTGGGCCGCCAATACCTTTGATTCCTTCAGTGGTGCCACCTGGGACCTGCAGCCTGAAAAGCTGGACTTCACCCAGTTCCATCGGAAGGTCCGCCACACACCCAAGCAGCCCCTGCCACACATCGACAGAGAAGGGTGTGGAAAGGGAAAGCTGGAAGATGGAGATGGTATCAGCCTGA
Peptide sequence:
MLGTDIWAANTFDSFSGATWDLQPEKLDFTQFHRKVRHTPKQPLPHIDREGCGKGKLEDGDGISLNDIEKVLPTWQGYHPMPHEAEIAHTKKLFRRRRNDRRMATRTTPWTCWAQISGPPIPLIPSVVPPGTCSLKSWTSPSSIGRSATHPSSPCHTSTEKGVERESWKMEMVSA
IRESfinder result
IRESfinder score
0.291835578
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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