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mmu_circTtl_639
Basic information of circular RNA
PanCircBase ID:
mmu_circTtl_639
mm39_Chr. Position ID:
chr2|128917775|128924163|+
Gene name:
Ttl
Transcript:
ENSMUST00000035812.14
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
3,4,5
Exon/intron offsets:
0,5354,6118
Genomic length:
6388
Exon/intron sizes in nt:
23,31,36,270
Flanking exon/introns:
chr2:128910853-128917775|chr2:128924163-128930913
Splice length:
639
Other database IDs:
circAtlas: mmu-Ttl_0012
circBase: hsa_circ_0117036, circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_37548
Human Ortholog IDs:
Mature spliced Sequence:
GCTAGTCAAGACCAGTCCGGAACTGTCTGAGTCCTGCTCATGGTTCCCCGAGTCGTATGTGATTTATCCAACTAACCTCAAGACGCCAGTCGCTCCGGCGCAGAATGGCATCCAACTTCCGGTCAGTAACTCCAGGACAGATGAGAGAGAATTCTTCTTGGCTTCTTATAACAGAAAGAAAGAGGACGGGGAGGGCAACGTTTGGATTGCAAAGTCATCAGCTGGTGCCAAAGGTGAGGGCATCCTCATCTCCTCAGAGGCATCGGAGCTTCTGGATTTCATCGACAGCCAGGGCCAAGTGCACGTGATCCAGAAATACCTCGAGCGCCCTCTGCTCCTCGAGCCCGGCCACCGCAAGTTTGACATTCGAAGCTGGGTCCTGGTTGACCATCAGTATAACATCTACCTCTATAGAGAGGGTGTGCTTCGAACTGCTTCAGAACCATATCATGTTGATAATTTCCAAGATAAGACCTGCCATCTGACCAATCACTGCATTCAGAAAGAGTACTCAAAGAACTATGGGAAATACGAAGAAGGGAATGAAATGTTCTTCGAAGAGTTCAATCAGTACCTAACCAGCGCTCTGAACATCACCTTAGAAAGTAGCATTTTGCTGCAAATCAAACACATAATAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AACCAGCGCTCTGAACATCA
59.96
CGACTGGCGTCTTGAGGTTA
59.76
155
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ACCTAACCAGCGCTCTGAAC
60.04
CGACTGGCGTCTTGAGGTTA
59.76
159
PCR template sequence:
GGAATGAAATGTTCTTCGAAGAGTTCAATCAGTACCTAACCAGCGCTCTGAACATCACCTTAGAAAGTAGCATTTTGCTGCAAATCAAACACATAATAAGGCTAGTCAAGACCAGTCCGGAACTGTCTGAGTCCTGCTCATGGTTCCCCGAGTCGTATGTGATTTATCCAACTAACCTCAAGACGCCAGTCGCTCCGGCG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
12
Interacting miRNAs (#binding sites)
mmu-let-7a-5p(1), mmu-let-7e-5p(1), mmu-let-7b-5p(1), mmu-let-7c-5p(1), mmu-miR-328-3p(1), mmu-let-7d-5p(1), mmu-miR-676-3p(1), mmu-miR-127-5p(1), mmu-miR-96-5p(1), mmu-miR-98-5p(1), mmu-miR-540-3p(1), mmu-miR-542-5p(1)
siRNAs for circular RNA silencing
Junction sequence
AACACATAATAAGGCTAGTCAAGACC
siRNA sets
TTGACTAGCCTTATTATGT, TGACTAGCCTTATTATGTG, CTTGACTAGCCTTATTATG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCTTL_639_ORF_1
0.9631
0.284491587
0.94987898
729
ORF sequence:
ATGTTCTTCGAAGAGTTCAATCAGTACCTAACCAGCGCTCTGAACATCACCTTAGAAAGTAGCATTTTGCTGCAAATCAAACACATAATAAGGCTAGTCAAGACCAGTCCGGAACTGTCTGAGTCCTGCTCATGGTTCCCCGAGTCGTATGTGATTTATCCAACTAACCTCAAGACGCCAGTCGCTCCGGCGCAGAATGGCATCCAACTTCCGGTCAGTAACTCCAGGACAGATGAGAGAGAATTCTTCTTGGCTTCTTATAACAGAAAGAAAGAGGACGGGGAGGGCAACGTTTGGATTGCAAAGTCATCAGCTGGTGCCAAAGGTGAGGGCATCCTCATCTCCTCAGAGGCATCGGAGCTTCTGGATTTCATCGACAGCCAGGGCCAAGTGCACGTGATCCAGAAATACCTCGAGCGCCCTCTGCTCCTCGAGCCCGGCCACCGCAAGTTTGACATTCGAAGCTGGGTCCTGGTTGACCATCAGTATAACATCTACCTCTATAGAGAGGGTGTGCTTCGAACTGCTTCAGAACCATATCATGTTGATAATTTCCAAGATAAGACCTGCCATCTGACCAATCACTGCATTCAGAAAGAGTACTCAAAGAACTATGGGAAATACGAAGAAGGGAATGAAATGTTCTTCGAAGAGTTCAATCAGTACCTAACCAGCGCTCTGAACATCACCTTAGAAAGTAGCATTTTGCTGCAAATCAAACACATAATA
Peptide sequence:
MFFEEFNQYLTSALNITLESSILLQIKHIIRLVKTSPELSESCSWFPESYVIYPTNLKTPVAPAQNGIQLPVSNSRTDEREFFLASYNRKKEDGEGNVWIAKSSAGAKGEGILISSEASELLDFIDSQGQVHVIQKYLERPLLLEPGHRKFDIRSWVLVDHQYNIYLYREGVLRTASEPYHVDNFQDKTCHLTNHCIQKEYSKNYGKYEEGNEMFFEEFNQYLTSALNITLESSILLQIKHII
IRESfinder result
IRESfinder score
0.470137416
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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