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mmu_ciGmfb_1157
Basic information of circular RNA
PanCircBase ID:
mmu_ciGmfb_1157
mm39_Chr. Position ID:
chr14|47053685|47054842|-
Gene name:
Gmfb
Transcript:
ENSMUST00000079314.12
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
2
Exon/intron offsets:
0
Genomic length:
1157
Exon/intron sizes in nt:
1157
Flanking exon/introns:
chr14:47053684-47054842
Splice length:
1157
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTAAGCTGAAGTTGCCTCAAAACTATATGATGTTAGTTTGTTTTCTCTTAAAGCTCCTTTGAATACTCCAAGCCTTCAGAGTGCAATGGTGCCTCCACCGGCTGCATTTACCACCGTTACCTCTGCAAGTTAAACTGCTCATGCCATTGCCAAAGATAACCCTGAGCCAGCTGCCTCCCCAGCTCTGGAGAGGCCGATTGTCTTAGTCACTTGAGGAGTGAGGGTTCCCATTGTAGTGACCCATGGACTTTGTCTTTCCCAGGGTGCTAACAGTAGTTCAGACCAAACATTTGCCCACACCTAAATTGTAAAGTTCAGCACTGGGCATTGATCTTAGTTGTGGAAGGACTTTACTTGTTTTGTAGGTAATACTTTGTGGGCAATGATTTAGAAAAGGGCTGAGGCAGTGAAGACATAAAGAGCATAGGCCACTTGTCAGAGGTGCATCAGGCAGGTGTCAGTAAACCAGCTGGTGGCACCTTAGCAAGTTTGTCTGTTATAACTAAATGCTATCATGTGGTCATTTGGTTCTTAAAGGGAAAATGTGGAAGAGTGGCATTTACCACCAAAGATGAGGCCATGTGAAGTCACATTGTGTGTTCGTAGGATTTAATGTGAATTTTGTGCAAACCCGAACATAGTTGCATCATTAGACAGGTAGAAAAGTATAAAGGCATAGGCGACCTTTATTTTCACATAGATTTGGGTTGGGTTATATCACTTATATTTGAATATCTTTGAATAGAGGTGGGATTGGTAATTCACTTTCTCAGAATAATGACTATATGCATGGCATTGTAATGTTGGCGAAGCTGGAGGTCTTGGGGTTCTCTCTCCTGACCCCTGGTGAGCACTTCTTTTGCAGTTCTAATGTTGCACATAGACCAAGCTCAGGGTTATCCTTCCCAGCCCCTTAGAAAGTTGCATTGGGTTAGGAAGTTCTCCATACCCGAAGTCCATGTGAGGAGCTGGTAAGAGTCTAAATAATAAACAAGCAAGTTCCATGCTGGGAGTTCTATCCACAAGTGTAAAGGCAAAACTTGAATGTGCTTTATGCTGTTTCTTGGTGCTGTAGTTTGAGGTGCTCCCTCCCCTCCGCAATGACTAGGGCTGCACTGGGTTGGGTGACACGTTACTTACACTGTATTTTCATTGTA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AATGACTAGGGCTGCACTGG
59.75
TGCACTCTGAAGGCTTGGAG
59.96
143
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AATGACTAGGGCTGCACTGG
59.75
GCACTCTGAAGGCTTGGAGT
59.96
142
PCR template sequence:
TGTTTCTTGGTGCTGTAGTTTGAGGTGCTCCCTCCCCTCCGCAATGACTAGGGCTGCACTGGGTTGGGTGACACGTTACTTACACTGTATTTTCATTGTAGTAAGCTGAAGTTGCCTCAAAACTATATGATGTTAGTTTGTTTTCTCTTAAAGCTCCTTTGAATACTCCAAGCCTTCAGAGTGCAATGGTGCCTCCACCG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
14
Interacting miRNAs (#binding sites)
mmu-miR-204-5p(1), mmu-miR-29b-3p(1), mmu-miR-130a-3p(1), mmu-miR-18a-5p(1), mmu-miR-149-5p(1), mmu-miR-501-3p(1), mmu-miR-182-5p(1), mmu-miR-324-3p(1), mmu-miR-344d-3p(1), mmu-miR-3470b(1), mmu-miR-323-3p(1), mmu-miR-339-3p(1), mmu-miR-181d-5p(1), mmu-miR-7a-2-3p(1)
siRNAs for circular RNA silencing
Junction sequence
TATTTTCATTGTAGTAAGCTGAAGTT
siRNA sets
CTTCAGCTTACTACAATGA, TTCAGCTTACTACAATGAA
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
0.72473267
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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