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mmu_circCep350_1045
Basic information of circular RNA
PanCircBase ID:
mmu_circCep350_1045
mm39_Chr. Position ID:
chr1|155807253|155816576|-
Gene name:
Cep350
Transcript:
ENSMUST00000138762.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
11,10,9,8
Exon/intron offsets:
0,1281,4307,9209
Genomic length:
9323
Exon/intron sizes in nt:
1,22,66,21,47,114
Flanking exon/introns:
chr1:155804919-155807253|chr1:155816576-155819844
Splice length:
1045
Other database IDs:
circBase: hsa_circ_0015476, circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_29049
Human Ortholog IDs:
Mature spliced Sequence:
ATGATACCTCTGTAAAAGAGAAGCCTGTTGAAAAAAGTAAAGAGAAGAAAGTGGTTAAACCAGTACGAAAAATCCAAAAAGTGACACAGTTATCAAATCCAGAATGCAAAACAGGTAGCAGTCGTTTGATAAGTACATCTTCTTGGCGAGATGGACAAAAATTAGTAAAGAAGATTCTGGGACCTGCACCCAAGATGGAGCAAAAAGAGCGAAGACCCACATCGAATGACAGAAGTGGAAGAGAAAGAGTGGCTAAATTTGGGGGCCATATTGGAAGAGCAGAATCGGACCCCAAATTGGATGTTTCACATAAACAGCTTCCACGAAGCTCAGCACGTTCAAGAAGTAGTAGAGCTTGGTCTGAAACTAATATAGTGAAATCAGCTCTGTCCCTTCCAGACAATAAGCAGGAGGAAAGCGCTGCCTTAAACAAGGATTTTTTGCCAGTTGAAATTCGTGGGATTCTTGATGACTTACAGCTAGATTCTTCAGCTCAAGCTGTGAGGCAAGAGGCTGGAGAGGGACAGAATCAGAAGTCATCGGCCCCTGAACAAGTACCTCGGAGTCACAGCCCCGTGAAAAGAAAGCCAGACAAAATAACAGCGAACGAGGATCCGCCTGTGATTTCCAAGAAGCGCCACTATGACACAGATGAGGTACGACAGTACATTGTTAGACAGCAGGAGGAGAGGAGGAGGAGGCAACACGAAGAGAAGAAGGCTCAGAAGGAGGCTACGGAGCAGAAGAACAAACGATTACAGGAGCTCTACCGGAGACAGAGGGAAGCCTTCTCTAAAGCAAAAACTGTGCCTCCTTCTGACCCATTGGTCTCTAGACGGCTTCAGGAAACTTACTCCAAATTGCTACTAGAAAAGACTTTGCTTGAAGAACCAGCCCGTCAGCATGTTACACAGGACATACAGGCCAGACCTGGGTATCAGCCATCTGGAGAATCTGATAAAGAAAACAAAATACAGGAGCGTCCCCCAAGTGCGTCTTCCAGTAGTGACCTGTCCCTGTCAGAGCCTCCACAACCTCTTGCAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AAAATACAGGAGCGTCCCCC
59.74
TCGTACTGGTTTAACCACTTTCT
57.72
145
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AAAATACAGGAGCGTCCCCC
59.74
TCGTACTGGTTTAACCACTTTC
56.33
145
PCR template sequence:
CTGGAGAATCTGATAAAGAAAACAAAATACAGGAGCGTCCCCCAAGTGCGTCTTCCAGTAGTGACCTGTCCCTGTCAGAGCCTCCACAACCTCTTGCAAGATGATACCTCTGTAAAAGAGAAGCCTGTTGAAAAAAGTAAAGAGAAGAAAGTGGTTAAACCAGTACGAAAAATCCAAAAAGTGACACAGTTATCAAATCC
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-207(2), mmu-miR-1904(2), mmu-miR-29b-1-5p(1), mmu-miR-29b-2-5p(1), mmu-miR-129-5p(1), mmu-miR-5101(1), mmu-miR-3105-3p(1)
siRNAs for circular RNA silencing
Junction sequence
AACCTCTTGCAAGATGATACCTCTGT
siRNA sets
ACAGAGGTATCATCTTGCA, AGGTATCATCTTGCAAGAG, GGTATCATCTTGCAAGAGG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCCEP350_1045_ORF_1
0.9873
0.151892798
0.9967194
1185
ORF sequence:
ATGTTACACAGGACATACAGGCCAGACCTGGGTATCAGCCATCTGGAGAATCTGATAAAGAAAACAAAATACAGGAGCGTCCCCCAAGTGCGTCTTCCAGTAGTGACCTGTCCCTGTCAGAGCCTCCACAACCTCTTGCAAGATGATACCTCTGTAAAAGAGAAGCCTGTTGAAAAAAGTAAAGAGAAGAAAGTGGTTAAACCAGTACGAAAAATCCAAAAAGTGACACAGTTATCAAATCCAGAATGCAAAACAGGTAGCAGTCGTTTGATAAGTACATCTTCTTGGCGAGATGGACAAAAATTAGTAAAGAAGATTCTGGGACCTGCACCCAAGATGGAGCAAAAAGAGCGAAGACCCACATCGAATGACAGAAGTGGAAGAGAAAGAGTGGCTAAATTTGGGGGCCATATTGGAAGAGCAGAATCGGACCCCAAATTGGATGTTTCACATAAACAGCTTCCACGAAGCTCAGCACGTTCAAGAAGTAGTAGAGCTTGGTCTGAAACTAATATAGTGAAATCAGCTCTGTCCCTTCCAGACAATAAGCAGGAGGAAAGCGCTGCCTTAAACAAGGATTTTTTGCCAGTTGAAATTCGTGGGATTCTTGATGACTTACAGCTAGATTCTTCAGCTCAAGCTGTGAGGCAAGAGGCTGGAGAGGGACAGAATCAGAAGTCATCGGCCCCTGAACAAGTACCTCGGAGTCACAGCCCCGTGAAAAGAAAGCCAGACAAAATAACAGCGAACGAGGATCCGCCTGTGATTTCCAAGAAGCGCCACTATGACACAGATGAGGTACGACAGTACATTGTTAGACAGCAGGAGGAGAGGAGGAGGAGGCAACACGAAGAGAAGAAGGCTCAGAAGGAGGCTACGGAGCAGAAGAACAAACGATTACAGGAGCTCTACCGGAGACAGAGGGAAGCCTTCTCTAAAGCAAAAACTGTGCCTCCTTCTGACCCATTGGTCTCTAGACGGCTTCAGGAAACTTACTCCAAATTGCTACTAGAAAAGACTTTGCTTGAAGAACCAGCCCGTCAGCATGTTACACAGGACATACAGGCCAGACCTGGGTATCAGCCATCTGGAGAATCTGATAAAGAAAACAAAATACAGGAGCGTCCCCCAAGTGCGTCTTCCAGTAGTGACCTGTCCCTGTCAGAGCCTCCACAACCTCTTGCA
Peptide sequence:
MLHRTYRPDLGISHLENLIKKTKYRSVPQVRLPVVTCPCQSLHNLLQDDTSVKEKPVEKSKEKKVVKPVRKIQKVTQLSNPECKTGSSRLISTSSWRDGQKLVKKILGPAPKMEQKERRPTSNDRSGRERVAKFGGHIGRAESDPKLDVSHKQLPRSSARSRSSRAWSETNIVKSALSLPDNKQEESAALNKDFLPVEIRGILDDLQLDSSAQAVRQEAGEGQNQKSSAPEQVPRSHSPVKRKPDKITANEDPPVISKKRHYDTDEVRQYIVRQQEERRRRQHEEKKAQKEATEQKNKRLQELYRRQREAFSKAKTVPPSDPLVSRRLQETYSKLLLEKTLLEEPARQHVTQDIQARPGYQPSGESDKENKIQERPPSASSSSDLSLSEPPQPLA
IRESfinder result
IRESfinder score
0.482837235
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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