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mmu_circTanc1_1007
Basic information of circular RNA
PanCircBase ID:
mmu_circTanc1_1007
mm39_Chr. Position ID:
chr2|59627929|59638033|+
Gene name:
Tanc1
Transcript:
ENSMUST00000112568.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
13,14,15,16
Exon/intron offsets:
0,1985,8690,9981
Genomic length:
10104
Exon/intron sizes in nt:
1,67,60,81,09,123
Flanking exon/introns:
chr2:59626370-59627929|chr2:59638033-59645661
Splice length:
1007
Other database IDs:
circAtlas: mmu-Tanc1_0020
Human Ortholog IDs:
Mature spliced Sequence:
AGCAAAAAATTCCAGAAGAGGAGTATATCATCCTTATAGATGGCTTGAATGAAGCTGAGTTTCATAAGCCTGATTACGGAGATACGCTGTCTTCGTTTATTACCAAAATTATTCCTAAGTTCCCCACCTGGCTGAAGTTGATCGTGACCGTGAGAGCAAATTTTCAGGAAATCATCAGTGCACTGCCATTTGTCAAGCTTTCCCTAGACGACTTTCCAGACAACAAGGACATTCACAGTGACCTGCACGCCTACGTCCAGCACAGGGTCCACAGCAGCCAGGACATCCTCAGCAACATCTCCCTGAATGGCAAGGCCGACGCCGCCCTCATCAGCAAAGTCAGCAGCCATCTGGTGCTGCGGAGCCTCGGTTCCTACCTGTACCTCAAGCTCACGCTGGACCTCTTCCAGCGGGGCCACCTGGTCATAAAGAGTGCCAGCTACAAGGTGGTGCCTGTGTCTCTGTCCGAGCTCTATCTGCTGCAGTGTAACATGAAGTTCATGACCCAGTCTGCCTTTGACCGGGCCCTTCCCATTTTGAACGTGGCTCTTGCGTCCCTCCACCCCATGACGGATGAGCAGATATTTCAGGCTATCAACGCCGGCCACATCCAAGGCGAGCAGGGCTGGGAGGACTTCCAGCAGAGGATGGAGGCCCTCTCTTGCTTCCTCATTAAGAGGAGGGACAAAACCCGCATGTTCTGCCACCCGTCCTTCAGAGAGTGGCTGGTGTGGAGAGCGGATGGCGAAAGCACAGCCTTCCTGTGTGAGCCCAGGAACGGACACGCTCTACTGGCGTTCATGTTCTCTCGACAGGAGAGCAAGCTGAACCGCCAGCAGACCATGGAGCTTGGCCACCACATCCTGAAGGCACACATTTTCAAGGGCCTCAGTAAGAAGACTGGAGTCTCCTCAAGCCATCTGCAGGCTCTGTGGATCGGTTACAGCACAGAGGGGCTGTCTGCTGCCCTGGCCTCTCTCAGGAATCTCTATACTCCCAACGTGAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GGCTCTGTGGATCGGTTACA
59.46
CGAAGACAGCGTATCTCCGT
59.62
177
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GGCTCTGTGGATCGGTTACA
59.46
ACGAAGACAGCGTATCTCCG
59.62
178
PCR template sequence:
CTCCTCAAGCCATCTGCAGGCTCTGTGGATCGGTTACAGCACAGAGGGGCTGTCTGCTGCCCTGGCCTCTCTCAGGAATCTCTATACTCCCAACGTGAAGAGCAAAAAATTCCAGAAGAGGAGTATATCATCCTTATAGATGGCTTGAATGAAGCTGAGTTTCATAAGCCTGATTACGGAGATACGCTGTCTTCGTTTAT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
11
Interacting miRNAs (#binding sites)
mmu-miR-221-3p(1), mmu-miR-34c-5p(1), mmu-miR-34a-5p(1), mmu-miR-335-5p(1), mmu-miR-148a-3p(1), mmu-miR-34b-5p(1), mmu-miR-342-3p(1), mmu-miR-377-3p(1), mmu-miR-466a-5p(1), mmu-miR-1187(1), mmu-miR-466p-5p(1)
siRNAs for circular RNA silencing
Junction sequence
TCCCAACGTGAAGAGCAAAAAATTCC
siRNA sets
AATTTTTTGCTCTTCACGT, TTTTTTGCTCTTCACGTTG, TTTTGCTCTTCACGTTGGG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCTANC1_1007_ORF_1
1.2486
0.296179264
0.904460182
555
ORF sequence:
ATGAAGTTCATGACCCAGTCTGCCTTTGACCGGGCCCTTCCCATTTTGAACGTGGCTCTTGCGTCCCTCCACCCCATGACGGATGAGCAGATATTTCAGGCTATCAACGCCGGCCACATCCAAGGCGAGCAGGGCTGGGAGGACTTCCAGCAGAGGATGGAGGCCCTCTCTTGCTTCCTCATTAAGAGGAGGGACAAAACCCGCATGTTCTGCCACCCGTCCTTCAGAGAGTGGCTGGTGTGGAGAGCGGATGGCGAAAGCACAGCCTTCCTGTGTGAGCCCAGGAACGGACACGCTCTACTGGCGTTCATGTTCTCTCGACAGGAGAGCAAGCTGAACCGCCAGCAGACCATGGAGCTTGGCCACCACATCCTGAAGGCACACATTTTCAAGGGCCTCAGTAAGAAGACTGGAGTCTCCTCAAGCCATCTGCAGGCTCTGTGGATCGGTTACAGCACAGAGGGGCTGTCTGCTGCCCTGGCCTCTCTCAGGAATCTCTATACTCCCAACGTGAAGAGCAAAAAATTCCAGAAGAGGAGTATATCATCCTTATAG
Peptide sequence:
MKFMTQSAFDRALPILNVALASLHPMTDEQIFQAINAGHIQGEQGWEDFQQRMEALSCFLIKRRDKTRMFCHPSFREWLVWRADGESTAFLCEPRNGHALLAFMFSRQESKLNRQQTMELGHHILKAHIFKGLSKKTGVSSSHLQALWIGYSTEGLSAALASLRNLYTPNVKSKKFQKRSISSL
IRESfinder result
IRESfinder score
0.467044223
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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