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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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Institute of Life sciences, Bhubaneswar, India

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