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mmu_circCrebrf_1870
Basic information of circular RNA
PanCircBase ID:
mmu_circCrebrf_1870
mm39_Chr. Position ID:
chr17|26955762|26981285|+
Gene name:
Crebrf
Transcript:
ENSMUST00000062519.14
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
6
Exon/intron indexes:
2,3,4,5,6,7
Exon/intron offsets:
0,2754,5253,21016,22971,25449
Genomic length:
25523
Exon/intron sizes in nt:
195,126,1090,195,190,74
Flanking exon/introns:
chr17:26934748-26955762|chr17:26981285-26982299
Splice length:
1870
Other database IDs:
CIRCpedia: MMU_CIRCpedia_14832, circAtlas: mmu-Crebrf_0031
circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_102289
Human Ortholog IDs:
Mature spliced Sequence:
AACCGCAAATTTATTTTTTTTAAAAAGTGGTGACCCAAGCAGTTGAACTGAAGGTATTCTGGGAAAATCTGCTGTTTATTGTGAAAATCATCTTTGATCTTGGAATTAAAAGTAAAGCTGGAAAGGAATTTACAAACAAGAAAAAGAAGAAGTTTGGAATTGGACTCACAGGATCTGGGCTTGGAAATGCCTCAGCCCAGCGTAAGCGGAATGGACCCGCCTTTTGGGGATGCCTTTCGAAGCCACACCTTTTCAGAACAGACTCTGATGAGCACAGATCTCTTAGCCAACAGTTCTGATCCAGATTTCATGTATGAGCTGGATAGAGAGATGAATTATCAACAGAATCCTAGAGACAACTTCCTTTCTTTGGAAGACTGCAAAGACATTGAAAATCTGGAGACTTTCACAGATGTCCTGGACAATGAGGATGCTTTAACTTCAAACTGGGAACAGTGGGATACATACTGTGAAGACTTAACTAAGTACACGAAGCTCACCAGCTGTGACATTTGGGGGACAAAAGAGGTGGATTACCTGGGTCTTGATGACTTTTCTAGCCCTTACCAAGATGAAGAGGTCATCAGTAAAACTCCAACACTGGCCCAGCTCAATAGTGAGGACTCTCAGTCTGTTTCCGATTCCCTTTATTATCCTGACTCACTCTTCAGTGTCAAACAAAATCCCTTGCCCCCCTCCTCTTTTCCTAGTAAAAAGATCACAAATAGAGCAGCTGCCCCTGTGTGTTCTTCAAAGACACTTCAGGCTGAGGTCCCATCATCAGACTGTGTCCAAAAAGCAAGCAAACCTACTTCAAGCACACAGATCATGGTGAAGACCAACATGTATCATAATGAAAAGGTGAATTTTCATGTTGAATGTAAAGACTATGTAAAAAAAGCAAAAGTCAAGATCAACCCTGTGCAACAGGGCCGGCCCTTGCTGAGCCAGGTCCACATAGATGCAGCAAAGGAGAACACCTGCTACTGTGGAGCTGTGGCAAAGAGACAGGAGAGAAGGGGGGTGGAGCCGCATCAGGGTCGGGGCACTCCTGCTTTGCCTTTCAAAGAAACCCAGGAGCTATTACTTAGTCCTCTGACGCAGGATAGTCCTGGGTTGGTTGCCACAGCAGAGAGTGGCAGCCTTTCTGCCAGCACTTCTGTTTCAGATTCATCCCAGAAAAAAGAAGAGCACAATTATTCTCTTTTTGTCTCTGACAACATGAGAGAACAGCCAACCAAATACAGTCCTGAAGATGATGAGGATGATGAAGATGAGTTTGATGATGAGGACCATGATGAAGGGTTTGGCAGCGAGCATGAGCTTTCTGAAAATGAAGAGGAGGAAGAAGAGGAAGAGGATTATGAGGATGACAGAGATGATGATATCAGCGACACGTTCTCTGAACCAGGTTATGAAAATGACTCTGTAGAGGACTTGAAGGAGATGACGTCCATATCTTCTCGGAAGAGAGGGAAAAGAAGGTACTTCTGGGAGTATAGTGAGCAGCTTACACCATCACAGCAAGAGAGGATTCTGAGGCCTTCTGAGTGGAATCGAGATACCTTGCCAAGTAATATGTACCAGAAAAATGGCTTACATCATGGGAAATACGCAGTGAAGAAATCACGGAGAACTGATGTGGAAGACCTTACTCCAAACCCTAAAAAACTACTTCAGATTGGTAATGAGCTGCGCAAGCTGAATAAGGTGATCAGTGACCTGACTCCAGTTAGTGAGCTTCCCTTAACAGCAAGGCCAAGGTCAAGGAAAGAAAAAAATAAGCTGGCATCCAGAGCTTGTAGGCTAAAGAAGAAAGCCCAGTATGAAGCTAATAAAGTGAAGTTGTGGGGCCTCAACACTGAATATG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGGCATCCAGAGCTTGTAGG
59.46
TACCTTCAGTTCAACTGCTTGG
58.52
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GCATCCAGAGCTTGTAGGCT
59.82
ACAGCAGATTTTCCCAGAATACCT
60.02
157
PCR template sequence:
AAAGAAAAAAATAAGCTGGCATCCAGAGCTTGTAGGCTAAAGAAGAAAGCCCAGTATGAAGCTAATAAAGTGAAGTTGTGGGGCCTCAACACTGAATATGAACCGCAAATTTATTTTTTTTAAAAAGTGGTGACCCAAGCAGTTGAACTGAAGGTATTCTGGGAAAATCTGCTGTTTATTGTGAAAATCATCTTTGATCT
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-miR-335-3p(2), mmu-miR-199a-5p(1), mmu-miR-181a-5p(1), mmu-miR-324-5p(1), mmu-miR-139-5p(1), mmu-miR-182-5p(1), mmu-miR-218-5p(1), mmu-miR-382-5p(1), mmu-miR-541-5p(1), mmu-miR-383-5p(1), mmu-miR-325-3p(1), mmu-miR-673-5p(1)
siRNAs for circular RNA silencing
Junction sequence
AACACTGAATATGAACCGCAAATTTA
siRNA sets
ATTTGCGGTTCATATTCAG, AAATTTGCGGTTCATATTC, TTTGCGGTTCATATTCAGT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCCREBRF_1870_ORF_1
1.0554
0.205924699
0.999944127
1707
ORF sequence:
ATGCCTCAGCCCAGCGTAAGCGGAATGGACCCGCCTTTTGGGGATGCCTTTCGAAGCCACACCTTTTCAGAACAGACTCTGATGAGCACAGATCTCTTAGCCAACAGTTCTGATCCAGATTTCATGTATGAGCTGGATAGAGAGATGAATTATCAACAGAATCCTAGAGACAACTTCCTTTCTTTGGAAGACTGCAAAGACATTGAAAATCTGGAGACTTTCACAGATGTCCTGGACAATGAGGATGCTTTAACTTCAAACTGGGAACAGTGGGATACATACTGTGAAGACTTAACTAAGTACACGAAGCTCACCAGCTGTGACATTTGGGGGACAAAAGAGGTGGATTACCTGGGTCTTGATGACTTTTCTAGCCCTTACCAAGATGAAGAGGTCATCAGTAAAACTCCAACACTGGCCCAGCTCAATAGTGAGGACTCTCAGTCTGTTTCCGATTCCCTTTATTATCCTGACTCACTCTTCAGTGTCAAACAAAATCCCTTGCCCCCCTCCTCTTTTCCTAGTAAAAAGATCACAAATAGAGCAGCTGCCCCTGTGTGTTCTTCAAAGACACTTCAGGCTGAGGTCCCATCATCAGACTGTGTCCAAAAAGCAAGCAAACCTACTTCAAGCACACAGATCATGGTGAAGACCAACATGTATCATAATGAAAAGGTGAATTTTCATGTTGAATGTAAAGACTATGTAAAAAAAGCAAAAGTCAAGATCAACCCTGTGCAACAGGGCCGGCCCTTGCTGAGCCAGGTCCACATAGATGCAGCAAAGGAGAACACCTGCTACTGTGGAGCTGTGGCAAAGAGACAGGAGAGAAGGGGGGTGGAGCCGCATCAGGGTCGGGGCACTCCTGCTTTGCCTTTCAAAGAAACCCAGGAGCTATTACTTAGTCCTCTGACGCAGGATAGTCCTGGGTTGGTTGCCACAGCAGAGAGTGGCAGCCTTTCTGCCAGCACTTCTGTTTCAGATTCATCCCAGAAAAAAGAAGAGCACAATTATTCTCTTTTTGTCTCTGACAACATGAGAGAACAGCCAACCAAATACAGTCCTGAAGATGATGAGGATGATGAAGATGAGTTTGATGATGAGGACCATGATGAAGGGTTTGGCAGCGAGCATGAGCTTTCTGAAAATGAAGAGGAGGAAGAAGAGGAAGAGGATTATGAGGATGACAGAGATGATGATATCAGCGACACGTTCTCTGAACCAGGTTATGAAAATGACTCTGTAGAGGACTTGAAGGAGATGACGTCCATATCTTCTCGGAAGAGAGGGAAAAGAAGGTACTTCTGGGAGTATAGTGAGCAGCTTACACCATCACAGCAAGAGAGGATTCTGAGGCCTTCTGAGTGGAATCGAGATACCTTGCCAAGTAATATGTACCAGAAAAATGGCTTACATCATGGGAAATACGCAGTGAAGAAATCACGGAGAACTGATGTGGAAGACCTTACTCCAAACCCTAAAAAACTACTTCAGATTGGTAATGAGCTGCGCAAGCTGAATAAGGTGATCAGTGACCTGACTCCAGTTAGTGAGCTTCCCTTAACAGCAAGGCCAAGGTCAAGGAAAGAAAAAAATAAGCTGGCATCCAGAGCTTGTAGGCTAAAGAAGAAAGCCCAGTATGAAGCTAATAAAGTGAAGTTGTGGGGCCTCAACACTGAATATGAACCGCAAATTTATTTTTTTTAA
Peptide sequence:
MPQPSVSGMDPPFGDAFRSHTFSEQTLMSTDLLANSSDPDFMYELDREMNYQQNPRDNFLSLEDCKDIENLETFTDVLDNEDALTSNWEQWDTYCEDLTKYTKLTSCDIWGTKEVDYLGLDDFSSPYQDEEVISKTPTLAQLNSEDSQSVSDSLYYPDSLFSVKQNPLPPSSFPSKKITNRAAAPVCSSKTLQAEVPSSDCVQKASKPTSSTQIMVKTNMYHNEKVNFHVECKDYVKKAKVKINPVQQGRPLLSQVHIDAAKENTCYCGAVAKRQERRGVEPHQGRGTPALPFKETQELLLSPLTQDSPGLVATAESGSLSASTSVSDSSQKKEEHNYSLFVSDNMREQPTKYSPEDDEDDEDEFDDEDHDEGFGSEHELSENEEEEEEEEDYEDDRDDDISDTFSEPGYENDSVEDLKEMTSISSRKRGKRRYFWEYSEQLTPSQQERILRPSEWNRDTLPSNMYQKNGLHHGKYAVKKSRRTDVEDLTPNPKKLLQIGNELRKLNKVISDLTPVSELPLTARPRSRKEKNKLASRACRLKKKAQYEANKVKLWGLNTEYEPQIYFF
IRESfinder result
IRESfinder score
0.568806776
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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