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mmu_circSmurf2_916
Basic information of circular RNA
PanCircBase ID:
mmu_circSmurf2_916
mm39_Chr. Position ID:
chr11|106730013|106750622|-
Gene name:
Smurf2
Transcript:
ENSMUST00000103067.10
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
7
Exon/intron indexes:
11,10,9,8,7,6,5
Exon/intron offsets:
0,2412,6795,10560,13259,16993,20524
Genomic length:
20609
Exon/intron sizes in nt:
104,196,159,85,203,84,85
Flanking exon/introns:
chr11:106727010-106730013|chr11:106750622-106755537
Splice length:
916
Other database IDs:
circBase: hsa_circ_0009120, circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_22045
Human Ortholog IDs:
Mature spliced Sequence:
TAAGTCTTCAGTCCAGAGACCGAATAGGCACGGGAGGACAAGTTGTGGACTGTAGTCGTTTGTTTGACAATGATTTGCCAGATGGTTGGGAAGAAAGGCGGACTGCCTCGGGAAGAATCCAGTATCTAAACCACATCACAAGAACTACACAGTGGGAACGCCCAACACGACCGGCGTCAGAATATTCTAGTCCTGGCAGACCCCTCAGCTGCTTTGTGGATGAGAATACTCCAATTACTGGAACAAATGGTGCAACGTGTGGACATTCTTCAGACCCCAGACTAGCAGAGAGAAGAGTCAGGTCCCAGCGACATAGAAATTACATGAGCAGGACACACTTACACACTCCTCCAGACCTACCGGAAGGCTATGAACAAAGGACAACGCAGCAGGGTCAGGTATATTTCTTACATACTCAGACTGGTGTGAGCACATGGCATGATCCACGAGTGCCTAGGGATCTTAGCAACATCAATTGTGAAGAGCTCGGTCCTTTGCCTCCTGGATGGGAGATCCGCAATACCGCAACAGGAAGAGTTTATTTCGTTGACCATAACAACAGAACAACACAATTTACAGATCCCCGGCTCTCTGCTAACTTGCATTTAGTTTTAAATCGTCAGAACCAGTTGAAAGACCAACAGCAACAGCAAGTGGTGCCATTGTGTCCCGATGACACTGAGTGTCTGACAGTGCCAAGATACAAGCGAGATTTGGTTCAAAAACTAAAAATCTTGCGGCAAGAACTTTCCCAACAGCAGCCTCAAGCTGGCCACTGCCGTATTGAGGTGTCTAGGGAAGAGATTTTTGAGGAATCATATAGACAGGTCATGAAAATGAGGCCAAAAGATCTATGGAAGCGATTAATGATAAAATTTCGTGGAGAAGAAGGTCTTGACTATGGAGGAGTTGCCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ACAGGTCATGAAAATGAGGCCA
60.23
GTCCACAACTTGTCCTCCCG
60.6
143
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ACAGGTCATGAAAATGAGGCCA
60.23
AGTCCACAACTTGTCCTCCC
59.23
144
PCR template sequence:
CATATAGACAGGTCATGAAAATGAGGCCAAAAGATCTATGGAAGCGATTAATGATAAAATTTCGTGGAGAAGAAGGTCTTGACTATGGAGGAGTTGCCAGTAAGTCTTCAGTCCAGAGACCGAATAGGCACGGGAGGACAAGTTGTGGACTGTAGTCGTTTGTTTGACAATGATTTGCCAGATGGTTGGGAAGAAAGGCG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
11
Interacting miRNAs (#binding sites)
mmu-miR-34c-5p(1), mmu-miR-34a-5p(1), mmu-miR-122-5p(1), mmu-miR-139-5p(1), mmu-miR-181b-5p(1), mmu-miR-495-3p(1), mmu-miR-434-3p(1), mmu-miR-96-5p(1), mmu-miR-183-5p(1), mmu-miR-574-5p(1), mmu-miR-181d-5p(1)
siRNAs for circular RNA silencing
Junction sequence
GAGGAGTTGCCAGTAAGTCTTCAGTC
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCSMURF2_916_ORF_1
0.7476
0.058706744
0.955020951
930
ORF sequence:
ATGGAGGAGTTGCCAGTAAGTCTTCAGTCCAGAGACCGAATAGGCACGGGAGGACAAGTTGTGGACTGTAGTCGTTTGTTTGACAATGATTTGCCAGATGGTTGGGAAGAAAGGCGGACTGCCTCGGGAAGAATCCAGTATCTAAACCACATCACAAGAACTACACAGTGGGAACGCCCAACACGACCGGCGTCAGAATATTCTAGTCCTGGCAGACCCCTCAGCTGCTTTGTGGATGAGAATACTCCAATTACTGGAACAAATGGTGCAACGTGTGGACATTCTTCAGACCCCAGACTAGCAGAGAGAAGAGTCAGGTCCCAGCGACATAGAAATTACATGAGCAGGACACACTTACACACTCCTCCAGACCTACCGGAAGGCTATGAACAAAGGACAACGCAGCAGGGTCAGGTATATTTCTTACATACTCAGACTGGTGTGAGCACATGGCATGATCCACGAGTGCCTAGGGATCTTAGCAACATCAATTGTGAAGAGCTCGGTCCTTTGCCTCCTGGATGGGAGATCCGCAATACCGCAACAGGAAGAGTTTATTTCGTTGACCATAACAACAGAACAACACAATTTACAGATCCCCGGCTCTCTGCTAACTTGCATTTAGTTTTAAATCGTCAGAACCAGTTGAAAGACCAACAGCAACAGCAAGTGGTGCCATTGTGTCCCGATGACACTGAGTGTCTGACAGTGCCAAGATACAAGCGAGATTTGGTTCAAAAACTAAAAATCTTGCGGCAAGAACTTTCCCAACAGCAGCCTCAAGCTGGCCACTGCCGTATTGAGGTGTCTAGGGAAGAGATTTTTGAGGAATCATATAGACAGGTCATGAAAATGAGGCCAAAAGATCTATGGAAGCGATTAATGATAAAATTTCGTGGAGAAGAAGGTCTTGACTATGGAGGAGTTGCC
Peptide sequence:
MEELPVSLQSRDRIGTGGQVVDCSRLFDNDLPDGWEERRTASGRIQYLNHITRTTQWERPTRPASEYSSPGRPLSCFVDENTPITGTNGATCGHSSDPRLAERRVRSQRHRNYMSRTHLHTPPDLPEGYEQRTTQQGQVYFLHTQTGVSTWHDPRVPRDLSNINCEELGPLPPGWEIRNTATGRVYFVDHNNRTTQFTDPRLSANLHLVLNRQNQLKDQQQQQVVPLCPDDTECLTVPRYKRDLVQKLKILRQELSQQQPQAGHCRIEVSREEIFEESYRQVMKMRPKDLWKRLMIKFRGEEGLDYGGVA
IRESfinder result
IRESfinder score
0.535164547
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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