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mmu_circTaf4b_845
Basic information of circular RNA
PanCircBase ID:
mmu_circTaf4b_845
mm39_Chr. Position ID:
chr18|14946147|14955262|+
Gene name:
Taf4b
Transcript:
ENSMUST00000169862.2
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
7,8,9
Exon/intron offsets:
0,8347,9003
Genomic length:
9115
Exon/intron sizes in nt:
60,01,33,112
Flanking exon/introns:
chr18:14940491-14946147|chr18:14955262-14963075
Splice length:
845
Other database IDs:
circAtlas: mmu-Taf4b_0013
circAtlas: hsa-SCAF8_0001
Human Ortholog IDs:
Mature spliced Sequence:
AAGAGTGTGGTTGCCCTAAGACAGCTTCTTCCAAATTCCCAGAGCTTCATTGAGAACTGTGTGAAGGAAGTTTCTGGTGATGTGGTCATTTCCTCCTGTACCATGACAACAGCAACGTCTCCTGTGGTGACAAGTACAGTTTCCCCAGTCCTTGTGTCTGGAGCAACAGCACCCAGAACTCTGTCTGTTCAGCAGACCCTGAATCCACTTGCTGGTCCAGGAGTAGCAAACACTGGAGTTGTGACACTGCATTCTGTTGCCCCAGCTGCTGCAACAGGAGGTACGACAGCTGCAACTGTTTTGCTTCAAACTTCAAAACCACTAACAACATCAGTACCAAATACAGTGGCAGCAGTGTCCCTTCAGCCTGAGAATCCAGTTGTGTCTGGGGCAGCAGTAACACTGGCTATTCCATCAGCAACTTTTGGAGAAGCGTCCGCTACACCTCTTTGTCTTCCATCTGCGAAGCCTGCCATTACCTCTGCTGGGACCAAAGCTGATAAACCTGCCATTGGCACTCCAGTCCAGATCGTTACACAACCGAGCACCCTCCTTCCACAGGCGGCTGGCATTCCACAGACAGCCAAAGTCAAGCAACTAGTTGTACAGCAGCCTTCAGGAAGCAGTGTGAATCATGTGACCTCCATTTCCCATTCCTCACCATTGAGCACTCAGAACTGTGGGCAGAAGACACCAGTAAATGCTGTGATGCCTACTAGTAAGTTTCCTCCATCTTCCATCATAAAGCAAATTACTCTGCCTGGAAATAAACTTTTGTCGCTTCAAGCTCAAAGATCTTCTATTCAGAGCAATAAAATAAAAGAGAATGGACCAACATGCTTCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGTCGCTTCAAGCTCAAAGA
57.76
AGGAGGAAATGACCACATCACC
60.03
167
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ACTTTTGTCGCTTCAAGCTCA
58.71
AGGAGGAAATGACCACATCACC
60.03
172
PCR template sequence:
AGCAAATTACTCTGCCTGGAAATAAACTTTTGTCGCTTCAAGCTCAAAGATCTTCTATTCAGAGCAATAAAATAAAAGAGAATGGACCAACATGCTTCAGAAGAGTGTGGTTGCCCTAAGACAGCTTCTTCCAAATTCCCAGAGCTTCATTGAGAACTGTGTGAAGGAAGTTTCTGGTGATGTGGTCATTTCCTCCTGTA
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-199a-5p(2), mmu-miR-137-3p(1), mmu-miR-9-5p(1), mmu-miR-140-5p(1), mmu-miR-298-5p(1), mmu-miR-22-3p(1), mmu-miR-127-5p(1), mmu-miR-673-5p(1)
siRNAs for circular RNA silencing
Junction sequence
CAACATGCTTCAGAAGAGTGTGGTTG
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCTAF4B_845_ORF_1
1.1774
0.017518412
0.957988604
852
ORF sequence:
ATGCTTCAGAAGAGTGTGGTTGCCCTAAGACAGCTTCTTCCAAATTCCCAGAGCTTCATTGAGAACTGTGTGAAGGAAGTTTCTGGTGATGTGGTCATTTCCTCCTGTACCATGACAACAGCAACGTCTCCTGTGGTGACAAGTACAGTTTCCCCAGTCCTTGTGTCTGGAGCAACAGCACCCAGAACTCTGTCTGTTCAGCAGACCCTGAATCCACTTGCTGGTCCAGGAGTAGCAAACACTGGAGTTGTGACACTGCATTCTGTTGCCCCAGCTGCTGCAACAGGAGGTACGACAGCTGCAACTGTTTTGCTTCAAACTTCAAAACCACTAACAACATCAGTACCAAATACAGTGGCAGCAGTGTCCCTTCAGCCTGAGAATCCAGTTGTGTCTGGGGCAGCAGTAACACTGGCTATTCCATCAGCAACTTTTGGAGAAGCGTCCGCTACACCTCTTTGTCTTCCATCTGCGAAGCCTGCCATTACCTCTGCTGGGACCAAAGCTGATAAACCTGCCATTGGCACTCCAGTCCAGATCGTTACACAACCGAGCACCCTCCTTCCACAGGCGGCTGGCATTCCACAGACAGCCAAAGTCAAGCAACTAGTTGTACAGCAGCCTTCAGGAAGCAGTGTGAATCATGTGACCTCCATTTCCCATTCCTCACCATTGAGCACTCAGAACTGTGGGCAGAAGACACCAGTAAATGCTGTGATGCCTACTAGTAAGTTTCCTCCATCTTCCATCATAAAGCAAATTACTCTGCCTGGAAATAAACTTTTGTCGCTTCAAGCTCAAAGATCTTCTATTCAGAGCAATAAAATAAAAGAGAATGGACCAACATGCTTC
Peptide sequence:
MLQKSVVALRQLLPNSQSFIENCVKEVSGDVVISSCTMTTATSPVVTSTVSPVLVSGATAPRTLSVQQTLNPLAGPGVANTGVVTLHSVAPAAATGGTTAATVLLQTSKPLTTSVPNTVAAVSLQPENPVVSGAAVTLAIPSATFGEASATPLCLPSAKPAITSAGTKADKPAIGTPVQIVTQPSTLLPQAAGIPQTAKVKQLVVQQPSGSSVNHVTSISHSSPLSTQNCGQKTPVNAVMPTSKFPPSSIIKQITLPGNKLLSLQAQRSSIQSNKIKENGPTCF
IRESfinder result
IRESfinder score
0.728607215
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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