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mmu_circTtc21b_645
Basic information of circular RNA
PanCircBase ID:
mmu_circTtc21b_645
mm39_Chr. Position ID:
chr2|66053858|66057296|-
Gene name:
Ttc21b
Transcript:
ENSMUST00000102718.10
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
17,16,15,14
Exon/intron offsets:
0,561,2391,3216
Genomic length:
3438
Exon/intron sizes in nt:
11,17,32,39,222
Flanking exon/introns:
chr2:66053136-66053858|chr2:66057296-66059325
Splice length:
645
Other database IDs:
circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_135006
Human Ortholog IDs:
Mature spliced Sequence:
GTGAGAGAGTACCCATTATATCATTTAATCAAAGCACAGTCACAAAAGAAAATGGGGGAAGTAGCAGAAGCAATTAAAACTCTGCACATGGCAATGAACCTGCCAGGAATGAGGAGAAGCAGAGCCTCCTCGAAATCAAAGCACAGAACTGAGGTGGACGCGAGCCATCGGTTATCCATCTTCCTGGAGTTGGTGGAGGTCCACCGCTTAAATGGAGAACAGCATGAGGCAGCAAAGGTTTTACAGGATGCCATCCATGAGTTTTCGGGAACTTGTGAAGAATTACGTGTCACTATTGCTAATGCAGACCTGGCTCTGGCCCAAGGAGATACGGATCGTGCATTAAGCATGCTTCGAAATGTCACAACCGAACAGCCTTATTTTATAGAGGCCAAAGAAAAGATGGCAGATATTTATCTGAAGCATAGGAAAGAGAAAATGTTGTATATCACTTGTTACAGAGAAATTGCTGAGAGAATGCCCAGTCCCCGGTCTTTCCTGCTCCTCGGCGATGCGTACATGAACATTCAGGAGCCAGAAGAAGCCATAGTGGCCTATGAGCAAGCACTCAATCAGAACCCCAAAGATGGAACACTGGCAAGAAAAATTGGAAAAGCACTTGTCAAAACTCACAATTACTCAAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGGCCTATGAGCAAGCACTC
60.11
TTGCTTCTGCTACTTCCCCC
59.67
168
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGGCCTATGAGCAAGCACTC
60.11
GCTTCTGCTACTTCCCCCAT
59.45
166
PCR template sequence:
CATAGTGGCCTATGAGCAAGCACTCAATCAGAACCCCAAAGATGGAACACTGGCAAGAAAAATTGGAAAAGCACTTGTCAAAACTCACAATTACTCAAAGGTGAGAGAGTACCCATTATATCATTTAATCAAAGCACAGTCACAAAAGAAAATGGGGGAAGTAGCAGAAGCAATTAAAACTCTGCACATGGCAATGAACC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
7
Interacting miRNAs (#binding sites)
mmu-miR-134-5p(1), mmu-miR-199a-5p(1), mmu-miR-135a-5p(1), mmu-miR-149-5p(1), mmu-miR-136-5p(1), mmu-miR-218-5p(1), mmu-miR-207(1)
siRNAs for circular RNA silencing
Junction sequence
CAATTACTCAAAGGTGAGAGAGTACC
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCTTC21B_645_ORF_1
0.9628
0.2099098
0.998196923
1239
ORF sequence:
ATGGGGGAAGTAGCAGAAGCAATTAAAACTCTGCACATGGCAATGAACCTGCCAGGAATGAGGAGAAGCAGAGCCTCCTCGAAATCAAAGCACAGAACTGAGGTGGACGCGAGCCATCGGTTATCCATCTTCCTGGAGTTGGTGGAGGTCCACCGCTTAAATGGAGAACAGCATGAGGCAGCAAAGGTTTTACAGGATGCCATCCATGAGTTTTCGGGAACTTGTGAAGAATTACGTGTCACTATTGCTAATGCAGACCTGGCTCTGGCCCAAGGAGATACGGATCGTGCATTAAGCATGCTTCGAAATGTCACAACCGAACAGCCTTATTTTATAGAGGCCAAAGAAAAGATGGCAGATATTTATCTGAAGCATAGGAAAGAGAAAATGTTGTATATCACTTGTTACAGAGAAATTGCTGAGAGAATGCCCAGTCCCCGGTCTTTCCTGCTCCTCGGCGATGCGTACATGAACATTCAGGAGCCAGAAGAAGCCATAGTGGCCTATGAGCAAGCACTCAATCAGAACCCCAAAGATGGAACACTGGCAAGAAAAATTGGAAAAGCACTTGTCAAAACTCACAATTACTCAAAGGTGAGAGAGTACCCATTATATCATTTAATCAAAGCACAGTCACAAAAGAAAATGGGGGAAGTAGCAGAAGCAATTAAAACTCTGCACATGGCAATGAACCTGCCAGGAATGAGGAGAAGCAGAGCCTCCTCGAAATCAAAGCACAGAACTGAGGTGGACGCGAGCCATCGGTTATCCATCTTCCTGGAGTTGGTGGAGGTCCACCGCTTAAATGGAGAACAGCATGAGGCAGCAAAGGTTTTACAGGATGCCATCCATGAGTTTTCGGGAACTTGTGAAGAATTACGTGTCACTATTGCTAATGCAGACCTGGCTCTGGCCCAAGGAGATACGGATCGTGCATTAAGCATGCTTCGAAATGTCACAACCGAACAGCCTTATTTTATAGAGGCCAAAGAAAAGATGGCAGATATTTATCTGAAGCATAGGAAAGAGAAAATGTTGTATATCACTTGTTACAGAGAAATTGCTGAGAGAATGCCCAGTCCCCGGTCTTTCCTGCTCCTCGGCGATGCGTACATGAACATTCAGGAGCCAGAAGAAGCCATAGTGGCCTATGAGCAAGCACTCAATCAGAACCCCAAAGATGGAACACTGGCAAGAAAAATTGGAAAAGCACTTGTCAAAACTCACAATTACTCAAAG
Peptide sequence:
MGEVAEAIKTLHMAMNLPGMRRSRASSKSKHRTEVDASHRLSIFLELVEVHRLNGEQHEAAKVLQDAIHEFSGTCEELRVTIANADLALAQGDTDRALSMLRNVTTEQPYFIEAKEKMADIYLKHRKEKMLYITCYREIAERMPSPRSFLLLGDAYMNIQEPEEAIVAYEQALNQNPKDGTLARKIGKALVKTHNYSKVREYPLYHLIKAQSQKKMGEVAEAIKTLHMAMNLPGMRRSRASSKSKHRTEVDASHRLSIFLELVEVHRLNGEQHEAAKVLQDAIHEFSGTCEELRVTIANADLALAQGDTDRALSMLRNVTTEQPYFIEAKEKMADIYLKHRKEKMLYITCYREIAERMPSPRSFLLLGDAYMNIQEPEEAIVAYEQALNQNPKDGTLARKIGKALVKTHNYSK
IRESfinder result
IRESfinder score
0.370412877
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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