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mmu_circTaf1_646_1
Basic information of circular RNA
PanCircBase ID:
mmu_circTaf1_646_1
mm39_Chr. Position ID:
chrX|100586069|100587761|+
Gene name:
Taf1
Transcript:
ENSMUST00000118878.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
6,7,8
Exon/intron offsets:
0,587,1484
Genomic length:
1692
Exon/intron sizes in nt:
219,219,208
Flanking exon/introns:
chrX:100584607-100586069|chrX:100587761-100590564
Splice length:
646
Other database IDs:
CIRCpedia: MMU_CIRCpedia_520, circAtlas: mmu-Taf1_0030
Human Ortholog IDs:
Mature spliced Sequence:
GTGTTACGCTTTTTACGGCTTTTTGGACCGGGGAAGAATGTTCCATCTGTTTGGAGGAGTGCTCGGAGAAAGAGGAAAAAGAAGCACCGTGAGCTTATACAGGAAGGGCAGGTCCAGGAAGAGGAGTGCTCAGTGGAATTAGAAGTCAACCAGAAATCTCTGTGGAACTATGACTATGCTCCTCCTCCACTTCCAGACCAGTGTCTCTCTGATGATGAAATCACAATGATGGCTCCTGTGGAGTCCAAGTTTTCCCAGTCAACTGGAGACACAGATAAAGTAATGGATACCAAGCCAAGAGTGGCCGAATGGCGTTATGGACCTGCCCGGCTGTGGTATGATATGCTAGGTGTTCCTGAAGATGGCAGTGGCTTTGATTATGGCTTCAAAATGAAGAAGACTGAACATGAATCTACAATAAAATGCAACATAATGAAGAAATTAAGGAAACTTGAGGAAAACAGTGGCGTCGATCTTCTGGCAGATGAAAACTTCCTAATGGTGACACAGCTGCATTGGGAAGATGATATCATTTGGGATGGGGAGGATGTCAAACACAAAGGAACAAAACCTCAGCGTGCGAGTTTGGCAGGCTGGCTTCCTTCCAGTATGACTAGGAATGCCATGGCCTACAATGTGCAGCAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GGAACAAAACCTCAGCGTGC
60.32
CTTTCTCCGAGCACTCCTCC
59.83
157
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GGAACAAAACCTCAGCGTGC
60.32
CCTCTTTCTCCGAGCACTCC
59.83
160
PCR template sequence:
GATGTCAAACACAAAGGAACAAAACCTCAGCGTGCGAGTTTGGCAGGCTGGCTTCCTTCCAGTATGACTAGGAATGCCATGGCCTACAATGTGCAGCAAGGTGTTACGCTTTTTACGGCTTTTTGGACCGGGGAAGAATGTTCCATCTGTTTGGAGGAGTGCTCGGAGAAAGAGGAAAAAGAAGCACCGTGAGCTTATAC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
4
Interacting miRNAs (#binding sites)
mmu-miR-7b-5p(1), mmu-miR-146a-5p(1), mmu-miR-207(1), mmu-miR-146b-5p(1)
siRNAs for circular RNA silencing
Junction sequence
AATGTGCAGCAAGGTGTTACGCTTTT
siRNA sets
TAACACCTTGCTGCACATT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCTAF1_646_1_ORF_1
0.9271
0.195938774
0.891023322
672
ORF sequence:
ATGCCATGGCCTACAATGTGCAGCAAGGTGTTACGCTTTTTACGGCTTTTTGGACCGGGGAAGAATGTTCCATCTGTTTGGAGGAGTGCTCGGAGAAAGAGGAAAAAGAAGCACCGTGAGCTTATACAGGAAGGGCAGGTCCAGGAAGAGGAGTGCTCAGTGGAATTAGAAGTCAACCAGAAATCTCTGTGGAACTATGACTATGCTCCTCCTCCACTTCCAGACCAGTGTCTCTCTGATGATGAAATCACAATGATGGCTCCTGTGGAGTCCAAGTTTTCCCAGTCAACTGGAGACACAGATAAAGTAATGGATACCAAGCCAAGAGTGGCCGAATGGCGTTATGGACCTGCCCGGCTGTGGTATGATATGCTAGGTGTTCCTGAAGATGGCAGTGGCTTTGATTATGGCTTCAAAATGAAGAAGACTGAACATGAATCTACAATAAAATGCAACATAATGAAGAAATTAAGGAAACTTGAGGAAAACAGTGGCGTCGATCTTCTGGCAGATGAAAACTTCCTAATGGTGACACAGCTGCATTGGGAAGATGATATCATTTGGGATGGGGAGGATGTCAAACACAAAGGAACAAAACCTCAGCGTGCGAGTTTGGCAGGCTGGCTTCCTTCCAGTATGACTAGGAATGCCATGGCCTACAATGTGCAGCAA
Peptide sequence:
MPWPTMCSKVLRFLRLFGPGKNVPSVWRSARRKRKKKHRELIQEGQVQEEECSVELEVNQKSLWNYDYAPPPLPDQCLSDDEITMMAPVESKFSQSTGDTDKVMDTKPRVAEWRYGPARLWYDMLGVPEDGSGFDYGFKMKKTEHESTIKCNIMKKLRKLEENSGVDLLADENFLMVTQLHWEDDIIWDGEDVKHKGTKPQRASLAGWLPSSMTRNAMAYNVQQ
IRESfinder result
IRESfinder score
0.311188799
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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