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mmu_circClip1_2078
Basic information of circular RNA
PanCircBase ID:
mmu_circClip1_2078
mm39_Chr. Position ID:
chr5|123728855|123779944|-
Gene name:
Clip1
Transcript:
ENSMUST00000111564.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
13
Exon/intron indexes:
19,18,17,16,15,14,13,12,11,10,9,8,7
Exon/intron offsets:
0,12806,18446,21029,26543,26864,31003,31963,32420,36501,39660,49701,50985
Genomic length:
51089
Exon/intron sizes in nt:
53,12,11,07,11,72,16,10,00,00,00,00,00,00,00,00,000
Flanking exon/introns:
chr5:123721701-123728855|chr5:123779944-123780481
Splice length:
2078
Other database IDs:
circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_119394
Human Ortholog IDs:
Mature spliced Sequence:
CATGTCCTGGAACTAGAGGCCAAGATGGACCAGCTACGGACCATGGTGGAAGCTGCTGACAGGGAGAAAGTGGAGCTGCTCAACCAGCTGGAAGAGGAGAAGAGGAAGGTTGAGGACCTTCAGTTCCGAGTTGAAGAAGAATCAATTACCAAAGGCGATCTTGAGGTGGCTACCGTCTCAGAAAAGTCCCGAATAATGGAACTAGAAAAGGACCTAGCATTGAGAGCACAGGAAGTAGCTGAGCTCCGAAGAAGGCTAGAGTCCAGTAAACCTCCTGGGGATGTGGATATGTCTCTCTCCCTTTTGCAAGAAATAAGTGCTTTGCAAGAAAAGCTAGAAGCCATCCATACTGACCACCAGGGCGAGATGACTTCTTTGAAGGAACACTTCGGAGCTCGAGAGGAGGCGTTTCAGAAGGAGATCAAGGCTCTGCACACGGCCACTGAGAAGCTTTCCAAAGAGAACGAGTCCCTGAGAAGCAAGCTCGACCACGCTAATAAGGAGAACTCCGATGTGATAGCTCTATGGAAGTCCAAACTGGAGACCGCCATAGCATCCCACCAGCAGGCAATGGAGGAGCTGAAGGTGTCCTTTAGCAAAGGCATTGGAACGGACTCCGCTGAATTTGCTGAGTTAAAGACACAGATAGAGAGACTGAGACTAGATTACCAGCACGAAATAGAAAGTTTACAGAGTAAACAGGACTCTGAGCGGTCTGCTCATGCTAAAGAGATGGAGACCATGCAGGCCAAGCTGATGAAGATCATTAAAGAGAAGGAGGACAGCCTGGAGGCCGTCAAAGCGAGACTGGACAGTGCAGAAGACCAGCACCTAGTGGAAATGGAGGACACGCTAAACAAACTGCAGGAGGCGGAGATTAAGGCTAATAGCATTACCAAAGAGCTCCAGGAGAAAGAGCTAGTGCTCACTGGTCTGCAGGACAGTTTGAATCAAGTCAATCAAGTGAAGGAGACTTTGGAGAAAGAACTTCAGACTTTGAAAGAAAAGTTTGCCAGTACTTCAGAGGAGGCGGTCTCTGCTCAGACAAGGATGCAAGATACCGTAAATAAACTGCACCAAAAGGAGGAACAGTTTAACGTGTTGTCGTCTGAACTGGAGAAGTTGAGAGAAAATTTAACAGACATGGAGGCAAAATTTAAAGAGAAGGATGATCGAGAAGATCAGCTGGTAAAGGCAAAGGAAAAATTAGAAAACGACATTGCAGAAATAATGAAGATGTCAGGAGATAACTCTTCTCAGCTGACAAAGATGAATGATGAATTACGTCTGAAGGAAAGATCCGTGGAAGAACTCCAGCTCAAGCTTACAAAGGCCAATGAAAACGCCAGTTTTCTGCAGAAGAGTATTGGCGAAGTGACTCTTAAAGCTGAGCAGAGTCAGCAGCAAGCAGCCAGAAAACATGAAGAAGAAAAGAAAGAGTTGGAGGAAAAACTGTTGGAACTGGAAAAGAAGATGGAAACAAGCTACAACCAGTGTCAGGACCTGAAAGCTAAGTATGAAAAAGCCAGTTCTGAGACTAAAACAAAGCATGAAGAAATCCTGCAGAACCTCCAGAAGATGCTGGCGGACACAGAGGATAAGCTGAAGGCTGCTCAGGAGGCGAACAGAGATCTGATGCAGGACATGGAGGAGCTGAAAACACAGGCCGACAAAGCCAAAGCTGCTCAGACTGCAGAAGACGCCATGCAGATCATGGAACAGATGACCAAAGAGAAAACAGAAACGCTGGCCTCCTTGGAGGACACCAAGCAAACAAATGCAAGACTACAGAATGAATTGGACACACTTAAGGAAAACAACTTGAAAACTGTGGAAGAGCTGAACAAGTCAAAAGAACTGCTGAGTGTAGAGAACCAAAAAATGGAAGAATTCAAGAAAGAAATAGAAACCCTAAAGCAGGCAGCAGCTCAGAAGTCCCAGCAGCTTTCAGCACTGCAGGAAGAGAACGTCAAACTTGCCGAGGAGCTGGGGAGAACCCGGGACGAAGTCACAAGTCACCAGAAGCTGGAAGAAGAACGATCTGTACTCAATAATCAGTTGTTAGAAATGAAAAAGAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ACGAAGTCACAAGTCACCAGA
59.25
ACTTTCTCCCTGTCAGCAGC
59.96
147
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AGTCACAAGTCACCAGAAGCT
59.23
ACTTTCTCCCTGTCAGCAGC
59.96
143
PCR template sequence:
CCGAGGAGCTGGGGAGAACCCGGGACGAAGTCACAAGTCACCAGAAGCTGGAAGAAGAACGATCTGTACTCAATAATCAGTTGTTAGAAATGAAAAAGAGCATGTCCTGGAACTAGAGGCCAAGATGGACCAGCTACGGACCATGGTGGAAGCTGCTGACAGGGAGAAAGTGGAGCTGCTCAACCAGCTGGAAGAGGAGA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
14
Interacting miRNAs (#binding sites)
mmu-miR-9-5p(1), mmu-miR-155-5p(1), mmu-miR-7b-5p(1), mmu-miR-135a-5p(1), mmu-miR-185-5p(1), mmu-miR-181b-5p(1), mmu-miR-136-5p(1), mmu-miR-370-3p(1), mmu-miR-758-3p(1), mmu-miR-325-3p(1), mmu-miR-5101(1), mmu-miR-335-3p(1), mmu-miR-532-5p(1), mmu-miR-181d-5p(1)
siRNAs for circular RNA silencing
Junction sequence
AAATGAAAAAGAGCATGTCCTGGAAC
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCCLIP1_2078_ORF_1
1.1477
0.412069403
0.99999851
2070
ORF sequence:
ATGGACCAGCTACGGACCATGGTGGAAGCTGCTGACAGGGAGAAAGTGGAGCTGCTCAACCAGCTGGAAGAGGAGAAGAGGAAGGTTGAGGACCTTCAGTTCCGAGTTGAAGAAGAATCAATTACCAAAGGCGATCTTGAGGTGGCTACCGTCTCAGAAAAGTCCCGAATAATGGAACTAGAAAAGGACCTAGCATTGAGAGCACAGGAAGTAGCTGAGCTCCGAAGAAGGCTAGAGTCCAGTAAACCTCCTGGGGATGTGGATATGTCTCTCTCCCTTTTGCAAGAAATAAGTGCTTTGCAAGAAAAGCTAGAAGCCATCCATACTGACCACCAGGGCGAGATGACTTCTTTGAAGGAACACTTCGGAGCTCGAGAGGAGGCGTTTCAGAAGGAGATCAAGGCTCTGCACACGGCCACTGAGAAGCTTTCCAAAGAGAACGAGTCCCTGAGAAGCAAGCTCGACCACGCTAATAAGGAGAACTCCGATGTGATAGCTCTATGGAAGTCCAAACTGGAGACCGCCATAGCATCCCACCAGCAGGCAATGGAGGAGCTGAAGGTGTCCTTTAGCAAAGGCATTGGAACGGACTCCGCTGAATTTGCTGAGTTAAAGACACAGATAGAGAGACTGAGACTAGATTACCAGCACGAAATAGAAAGTTTACAGAGTAAACAGGACTCTGAGCGGTCTGCTCATGCTAAAGAGATGGAGACCATGCAGGCCAAGCTGATGAAGATCATTAAAGAGAAGGAGGACAGCCTGGAGGCCGTCAAAGCGAGACTGGACAGTGCAGAAGACCAGCACCTAGTGGAAATGGAGGACACGCTAAACAAACTGCAGGAGGCGGAGATTAAGGCTAATAGCATTACCAAAGAGCTCCAGGAGAAAGAGCTAGTGCTCACTGGTCTGCAGGACAGTTTGAATCAAGTCAATCAAGTGAAGGAGACTTTGGAGAAAGAACTTCAGACTTTGAAAGAAAAGTTTGCCAGTACTTCAGAGGAGGCGGTCTCTGCTCAGACAAGGATGCAAGATACCGTAAATAAACTGCACCAAAAGGAGGAACAGTTTAACGTGTTGTCGTCTGAACTGGAGAAGTTGAGAGAAAATTTAACAGACATGGAGGCAAAATTTAAAGAGAAGGATGATCGAGAAGATCAGCTGGTAAAGGCAAAGGAAAAATTAGAAAACGACATTGCAGAAATAATGAAGATGTCAGGAGATAACTCTTCTCAGCTGACAAAGATGAATGATGAATTACGTCTGAAGGAAAGATCCGTGGAAGAACTCCAGCTCAAGCTTACAAAGGCCAATGAAAACGCCAGTTTTCTGCAGAAGAGTATTGGCGAAGTGACTCTTAAAGCTGAGCAGAGTCAGCAGCAAGCAGCCAGAAAACATGAAGAAGAAAAGAAAGAGTTGGAGGAAAAACTGTTGGAACTGGAAAAGAAGATGGAAACAAGCTACAACCAGTGTCAGGACCTGAAAGCTAAGTATGAAAAAGCCAGTTCTGAGACTAAAACAAAGCATGAAGAAATCCTGCAGAACCTCCAGAAGATGCTGGCGGACACAGAGGATAAGCTGAAGGCTGCTCAGGAGGCGAACAGAGATCTGATGCAGGACATGGAGGAGCTGAAAACACAGGCCGACAAAGCCAAAGCTGCTCAGACTGCAGAAGACGCCATGCAGATCATGGAACAGATGACCAAAGAGAAAACAGAAACGCTGGCCTCCTTGGAGGACACCAAGCAAACAAATGCAAGACTACAGAATGAATTGGACACACTTAAGGAAAACAACTTGAAAACTGTGGAAGAGCTGAACAAGTCAAAAGAACTGCTGAGTGTAGAGAACCAAAAAATGGAAGAATTCAAGAAAGAAATAGAAACCCTAAAGCAGGCAGCAGCTCAGAAGTCCCAGCAGCTTTCAGCACTGCAGGAAGAGAACGTCAAACTTGCCGAGGAGCTGGGGAGAACCCGGGACGAAGTCACAAGTCACCAGAAGCTGGAAGAAGAACGATCTGTACTCAATAATCAGTTGTTAGAAATGAAAAAGAGCATGTCCTGGAACTAG
Peptide sequence:
MDQLRTMVEAADREKVELLNQLEEEKRKVEDLQFRVEEESITKGDLEVATVSEKSRIMELEKDLALRAQEVAELRRRLESSKPPGDVDMSLSLLQEISALQEKLEAIHTDHQGEMTSLKEHFGAREEAFQKEIKALHTATEKLSKENESLRSKLDHANKENSDVIALWKSKLETAIASHQQAMEELKVSFSKGIGTDSAEFAELKTQIERLRLDYQHEIESLQSKQDSERSAHAKEMETMQAKLMKIIKEKEDSLEAVKARLDSAEDQHLVEMEDTLNKLQEAEIKANSITKELQEKELVLTGLQDSLNQVNQVKETLEKELQTLKEKFASTSEEAVSAQTRMQDTVNKLHQKEEQFNVLSSELEKLRENLTDMEAKFKEKDDREDQLVKAKEKLENDIAEIMKMSGDNSSQLTKMNDELRLKERSVEELQLKLTKANENASFLQKSIGEVTLKAEQSQQQAARKHEEEKKELEEKLLELEKKMETSYNQCQDLKAKYEKASSETKTKHEEILQNLQKMLADTEDKLKAAQEANRDLMQDMEELKTQADKAKAAQTAEDAMQIMEQMTKEKTETLASLEDTKQTNARLQNELDTLKENNLKTVEELNKSKELLSVENQKMEEFKKEIETLKQAAAQKSQQLSALQEENVKLAEELGRTRDEVTSHQKLEEERSVLNNQLLEMKKSMSWN
IRESfinder result
IRESfinder score
0.347321824
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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