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mmu_ciGtf3c1_2391
Basic information of circular RNA
PanCircBase ID:
mmu_ciGtf3c1_2391
mm39_Chr. Position ID:
chr7|125295729|125298120|-
Gene name:
Gtf3c1
Transcript:
ENSMUST00000205659.2
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
4
Exon/intron offsets:
0
Genomic length:
2391
Exon/intron sizes in nt:
2391
Flanking exon/introns:
chr7:125295729-125298120
Splice length:
2391
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTATGGCTGGGAGAAAATACTTAGTTACTTTTCTGTTGTAACTACGTGTGCTTTTAAGATTCTCAGAGGCCAAAAGCTAAAGCTTTTTTAAAAAATATTTTATATGTGTTTCTGATGAAAGTATATTTTGCTCATTTAGAAATCCTAGCAATTATACAAAAAGGAAAGAAAAATACTACCCAATGATAGGAACTGTTAATTAACATTTTGTTGAAGAGTGAAGGAAATTTGAAGTAAACCTAATTTGATAGGGTACAGTGGCAAAGTTGTTGAATTTTTGTCAATCTCAGATTGAATGTATTTCAGTCATACAGTCTAATAATTACCCTATATGGTCACACAGTGGGGTTATAAGAAATGGTCAAAATATGGAAAGGTGCCATTTTAGCTGGGTATCATAGTCTCACTGGTATACAGTGCTGGTGAGAACAAATACATTGTCTTAGGGTTTCTATTGCTGTGAAGAGGCACCATGACCACAACAATTCTTATAAAGGAAAATATTTTGGGAAGGCTGGCTTACAGTTCAAAGGTTTAGTTTATTATTGTCGTGGCAGGAAAACAGCAGTATGTAGCCAGTCCTGGAGAAGGAGCCAAGAGTACTACATCTTAATCTGCAGGCAGCAGAAGGAGACTTACTGATTAGGCTTGAGCATATATGAGATCTGAAAGCCACCTCCACCATGACACACCTCCTCCAACCAGGCCACACCTATTCCAACAAGGCATACCTTCTATTGCCACTCCCTAACATATGAGTCTATAAGGGTCACCTATCCAAACCACCACACATTTTCCCTTCTAAGGACCAGAGAATCTGGGAGTGAGCAAACACGTTTTTTCTCATTCTTCTTTACAGTTGGAATGAGTAATTAACCTGGAAAGGGCACACGGGGAAGGGTTGTACTGCCTGCCTAGTCTTTATAAGAAAAGTGAAAGCCAGGATAGGTAATAGCCAAGCAAGACCTAGAAAAGCAGCCCTAAGTTGCATAAGCTTCAAATGCTTAAGTTTGGTCGCCAGTACTCTGTGGTAGAGGTGGGCAGTACCAAGAGGCATTTGGAAAACAGGAAAGCAGACAGACACATCCCTAGACCATAACTGACTCTCCTCTAGCTGATTGGCAGAACCTGCTTTTTCCCCTCCTTGGCTAGATGCACTCTAGAGAGGCAAGTGTGCACTCCAGAGTAAGTGTAACTTCAGATTTTAACACTCAGTGCAGTACGTGTGACTTGACATAAGGTAGATACCGGGTGCAGACTATAGACTAGGCATCCAGTAAAATTCATGCCTGTATTCCTGTCAGGCATCTGTTATTCTGCGTGCCTTCACACCTGTACACTGTCAGAATGTATGTCACAAGTCCACCTTGCCAACTCTGCCATCTCAGCCTGTGTTTTGGAGAGAATCATGTTTTACAATTTTACATTTTAATGGCTCATACTGTACATTAGTGAAGTAAGTATATTGCCAAACTGTGACTGGCCTAGCATGGTGGCACATACCTGTTATCCTAGTACTTGAAAGGCTAAGGCATGAAGATCCTGAATTTGATGCCAGCTTGGATACAGAGTGAGACTGTATCAAAAACCAAAACAGCAACAAAGACCTACTCAAGCAGAGGCCTGGGACTTACCAGGAGCCTAGATAGCAGAAGGGTTGGAGAGGATGCATAGGGCAGCATTTGAGCCACAGGAGAGAGTGCCGGGGGTATGTCAGCGCCTCTGTTTTACCTTTACGTCTTTCTTGGGCAGAGTGCCTGTACCTCTAAACTGCTATTTCCTCTTGTGTAAAGTGGCCATGACAATGCTTCCCAAGTGCCAGAGCCAAGGGCAGTACCCATCTCTTCTTTATTCTTGTCCTCACTGGGGTACCATGCATGTGTTTTCTCTTCCCCTTGGACAAGGAGTCAAGCCATGCTGCCTCACACCCTTCCACAGACACAGGCTACATGGGCATTAGCTTCCTTGAAAGCCACAATCTCAGAAACATTTATCAAGATACACCAGCTTCATGCTACAAAGGAAGTGGGCATTGATCGGGTCAGTCACACCAGGGAAGCCAGGAGTAGAAATAGGAGAGGGCTTGGCGGAGGGAAGGGAGTGCAGCAGACATACAAAGGCTTCGAGCCTTAGACCTGGGTTTTGGAAAGCCTTCATCATGTCGGCACGCCACTCTTGGCCAAGTGTCACCGAAGGCAGAACTTGAGAGGCCCCTAACCTTTAAAGTGCTATCAAAAGGTGAGGCGGTTAGAGATCGTTGCATTGATGTGTCTGCTCTGGAGTCTGGTTTATACACTGCTAGCATAACTTTGGACACGAATTGTCATCTCTAAAGATCAGGTGGTCTTCAGTGCTAGACTCCAGCAGGTGACAGGCTGGTGTTTCTTGCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GATCAGGTGGTCTTCAGTGCT
59.72
GCTTTAGCTTTTGGCCTCTGA
58.84
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AGATCAGGTGGTCTTCAGTGC
59.72
GCTTTAGCTTTTGGCCTCTGA
58.84
141
PCR template sequence:
TACACTGCTAGCATAACTTTGGACACGAATTGTCATCTCTAAAGATCAGGTGGTCTTCAGTGCTAGACTCCAGCAGGTGACAGGCTGGTGTTTCTTGCAGGTATGGCTGGGAGAAAATACTTAGTTACTTTTCTGTTGTAACTACGTGTGCTTTTAAGATTCTCAGAGGCCAAAAGCTAAAGCTTTTTTAAAAAATATTT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
21
Interacting miRNAs (#binding sites)
mmu-miR-182-5p(2), mmu-miR-124-3p(1), mmu-miR-134-5p(1), mmu-miR-27b-3p(1), mmu-miR-181a-5p(1), mmu-miR-221-3p(1), mmu-miR-135a-5p(1), mmu-miR-26a-5p(1), mmu-miR-222-3p(1), mmu-miR-138-5p(1), mmu-miR-181b-5p(1), mmu-miR-26b-5p(1), mmu-miR-370-3p(1), mmu-miR-297a-5p(1), mmu-miR-1187(1), mmu-miR-207(1), mmu-miR-532-5p(1), mmu-miR-452-3p(1), mmu-miR-3065-5p(1), mmu-miR-3470b(1), mmu-miR-1904(1)
siRNAs for circular RNA silencing
Junction sequence
GTGTTTCTTGCAGGTATGGCTGGGAG
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
NA
NA
NA
NA
NA
ORF sequence:
NA
Peptide sequence:
NA
IRESfinder result
IRESfinder score
0.72709947
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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