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mmu_circTcp11l1_334
Basic information of circular RNA
PanCircBase ID:
mmu_circTcp11l1_334
mm39_Chr. Position ID:
chr2|104518722|104520975|-
Gene name:
Tcp11l1
Transcript:
ENSMUST00000111118.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
7,6
Exon/intron offsets:
0,2116
Genomic length:
2253
Exon/intron sizes in nt:
1,97,137
Flanking exon/introns:
chr2:104515889-104518722|chr2:104520975-104527854
Splice length:
334
Other database IDs:
CIRCpedia: MMU_CIRCpedia_214283, circAtlas: mmu-Tcp11l1_0002
circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_73680
Human Ortholog IDs:
Mature spliced Sequence:
GGCAATATTTTCTGTGTTGGACCTAATGAAAGTTGACATGGCCAACTTCGCCATCAGTAGCATTAGGCCGCACCTCATGCAGCAGTCAGTCGAGTATGAGAGGAGGAAGTTTCAGGAAGTGCTGGAGAGGCAGCCGAACTCCCTGGACTTTGCCACACAGTGGCTGGAAGAGGCCACAAATGACCTTTTGAGTCAGAAGTACAAACATGCCCTGCCAGCTGGGGGAGGCGCTGCTGGCTCTGGGGATGCCCCACTCCTGACCCCTGTTTCTGTCCAGAATTTCGCCTACCTGAAGCTTCTGAAATGGGACCACTTCCAGAGACCTTTCCCTGAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CCTGACCCCTGTTTCTGTCC
59.96
GACTGACTGCTGCATGAGGT
60.04
170
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CCACTCCTGACCCCTGTTTC
59.96
GACTGACTGCTGCATGAGGT
60.04
175
PCR template sequence:
TGGCTCTGGGGATGCCCCACTCCTGACCCCTGTTTCTGTCCAGAATTTCGCCTACCTGAAGCTTCTGAAATGGGACCACTTCCAGAGACCTTTCCCTGAGGGCAATATTTTCTGTGTTGGACCTAATGAAAGTTGACATGGCCAACTTCGCCATCAGTAGCATTAGGCCGCACCTCATGCAGCAGTCAGTCGAGTATGAG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
3
Interacting miRNAs (#binding sites)
mmu-miR-155-5p(1), mmu-miR-324-5p(1), mmu-miR-434-5p(1)
siRNAs for circular RNA silencing
Junction sequence
ACCTTTCCCTGAGGGCAATATTTTCT
siRNA sets
GAAAATATTGCCCTCAGGG, AGAAAATATTGCCCTCAGG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCTCP11L1_334_ORF_1
1.1034
0.258066691
0.58369434
345
ORF sequence:
ATGAAAGTTGACATGGCCAACTTCGCCATCAGTAGCATTAGGCCGCACCTCATGCAGCAGTCAGTCGAGTATGAGAGGAGGAAGTTTCAGGAAGTGCTGGAGAGGCAGCCGAACTCCCTGGACTTTGCCACACAGTGGCTGGAAGAGGCCACAAATGACCTTTTGAGTCAGAAGTACAAACATGCCCTGCCAGCTGGGGGAGGCGCTGCTGGCTCTGGGGATGCCCCACTCCTGACCCCTGTTTCTGTCCAGAATTTCGCCTACCTGAAGCTTCTGAAATGGGACCACTTCCAGAGACCTTTCCCTGAGGGCAATATTTTCTGTGTTGGACCTAATGAAAGTTGA
Peptide sequence:
MKVDMANFAISSIRPHLMQQSVEYERRKFQEVLERQPNSLDFATQWLEEATNDLLSQKYKHALPAGGGAAGSGDAPLLTPVSVQNFAYLKLLKWDHFQRPFPEGNIFCVGPNES
IRESfinder result
IRESfinder score
0.455563984
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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