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mmu_circClip1_2220
Basic information of circular RNA
PanCircBase ID:
mmu_circClip1_2220
mm39_Chr. Position ID:
chr5|123720782|123773341|-
Gene name:
Clip1
Transcript:
ENSMUST00000137363.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
14
Exon/intron indexes:
19,18,17,16,15,14,13,12,11,10,9,8,7,6
Exon/intron offsets:
0,564,801,8073,20879,26519,29102,34616,34937,39076,40036,40493,47733,52454
Genomic length:
52559
Exon/intron sizes in nt:
5,01,51,11,85,31,21,10,00,00,00,00,00,00,00,00,00,00,000
Flanking exon/introns:
chr5:123719660-123720782|chr5:123773341-123778556
Splice length:
2220
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
ACGCAGACCAAACTGGAGCATGCCCGCACTAAGGAGCTTGAACAGAGCCTGCTCTTTGAAAAGACCAAAGCTGACAAACTCCAGAGGGAGTTAGAAGACACTAGGGTGGCTACCGTCTCAGAAAAGTCCCGAATAATGGAACTAGAAAAGGACCTAGCATTGAGAGCACAGGAAGTAGCTGAGCTCCGAAGAAGGCTAGAGTCCAGTAAACCTCCTGGGGATGTGGATATGTCTCTCTCCCTTTTGCAAGAAATAAGTGCTTTGCAAGAAAAGCTAGAAGCCATCCATACTGACCACCAGGGCGAGATGACTTCTTTGAAGGAACACTTCGGAGCTCGAGAGGAGGCGTTTCAGAAGGAGATCAAGGCTCTGCACACGGCCACTGAGAAGCTTTCCAAAGAGAACGAGTCCCTGAGAAGCAAGCTCGACCACGCTAATAAGGAGAACTCCGATGTGATAGCTCTATGGAAGTCCAAACTGGAGACCGCCATAGCATCCCACCAGCAGGCAATGGAGGAGCTGAAGGTGTCCTTTAGCAAAGGCATTGGAACGGACTCCGCTGAATTTGCTGAGTTAAAGACACAGATAGAGAGACTGAGACTAGATTACCAGCACGAAATAGAAAGTTTACAGAGTAAACAGGACTCTGAGCGGTCTGCTCATGCTAAAGAGATGGAGACCATGCAGGCCAAGCTGATGAAGATCATTAAAGAGAAGGAGGACAGCCTGGAGGCCGTCAAAGCGAGACTGGACAGTGCAGAAGACCAGCACCTAGTGGAAATGGAGGACACGCTAAACAAACTGCAGGAGGCGGAGATTAAGAAAGAAAAGTTTGCCAGTACTTCAGAGGAGGCGGTCTCTGCTCAGACAAGGATGCAAGATACCGTAAATAAACTGCACCAAAAGGAGGAACAGTTTAACGTGTTGTCGTCTGAACTGGAGAAGTTGAGAGAAAATTTAACAGACATGGAGGCAAAATTTAAAGAGAAGGATGATCGAGAAGATCAGCTGGTAAAGGCAAAGGAAAAATTAGAAAACGACATTGCAGAAATAATGAAGATGTCAGGAGATAACTCTTCTCAGCTGACAAAGATGAATGATGAATTACGTCTGAAGGAAAGATCCGTGGAAGAACTCCAGCTCAAGCTTACAAAGGCCAATGAAAACGCCAGTTTTCTGCAGAAGAGTATTGGCGAAGTGACTCTTAAAGCTGAGCAGAGTCAGCAGCAAGCAGCCAGAAAACATGAAGAAGAAAAGAAAGAGTTGGAGGAAAAACTGTTGGAACTGGAAAAGAAGATGGAAACAAGCTACAACCAGTGTCAGGACCTGAAAGCTAAGTATGAAAAAGCCAGTTCTGAGACTAAAACAAAGCATGAAGAAATCCTGCAGAACCTCCAGAAGATGCTGGCGGACACAGAGGATAAGCTGAAGGCTGCTCAGGAGGCGAACAGAGATCTGATGCAGGACATGGAGGAGCTGAAAACACAGGCCGACAAAGCCAAAGCTGCTCAGACTGCAGAAGACGCCATGCAGATCATGGAACAGATGACCAAAGAGAAAACAGAAACGCTGGCCTCCTTGGAGGACACCAAGCAAACAAATGCAAGACTACAGAATGAATTGGACACACTTAAGGAAAACAACTTGAAAACTGTGGAAGAGCTGAACAAGTCAAAAGAACTGCTGAGTGTAGAGAACCAAAAAATGGAAGAATTCAAGAAAGAAATAGAAACCCTAAAGCAGGCAGCAGCTCAGAAGTCCCAGCAGCTTTCAGCACTGCAGGAAGAGAACGTCAAACTTGCCGAGGAGCTGGGGAGAACCCGGGACGAAGTCACAAGTCACCAGAAGCTGGAAGAAGAACGATCTGTACTCAATAATCAGTTGTTAGAAATGAAAAAGAGAGAATCTGAGTTCAGAAAAGACGCCGATGAAGAGAAAGCCTCCTTGCAGAAGTCGATCAGCCTCACCAGTGCCTTGCTCACAGAGAAGGACGCGGAGCTGGAGAAGCTGAGGAATGAGGTCACAGTGCTCAGGGGAGAGAATGCCACCGCCAAGTCCCTGCACTCAGTTGTGCAGACACTGGAGTCTGATAAGGTGAAGCTTGAGCTCAAGGTCAAAAACTTGGAACTTCAACTCAAGGAGAACAAGAGGCAGCTCAGCAGCTCCTCAGGTAACACTGATGCTCAGGCGGAAGAGGATGAGAGAGCCCAGGAGAGTCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AGAACAAGAGGCAGCTCAGC
60.32
TCCCTCTGGAGTTTGTCAGC
59.31
169
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GGAGAACAAGAGGCAGCTCA
59.68
TCCCTCTGGAGTTTGTCAGC
59.31
171
PCR template sequence:
CTTGGAACTTCAACTCAAGGAGAACAAGAGGCAGCTCAGCAGCTCCTCAGGTAACACTGATGCTCAGGCGGAAGAGGATGAGAGAGCCCAGGAGAGTCAGACGCAGACCAAACTGGAGCATGCCCGCACTAAGGAGCTTGAACAGAGCCTGCTCTTTGAAAAGACCAAAGCTGACAAACTCCAGAGGGAGTTAGAAGACA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
20
Interacting miRNAs (#binding sites)
mmu-miR-124-3p(1), mmu-miR-9-5p(1), mmu-miR-199a-5p(1), mmu-miR-7b-5p(1), mmu-miR-135a-5p(1), mmu-miR-125b-5p(1), mmu-miR-185-5p(1), mmu-miR-181b-5p(1), mmu-miR-136-5p(1), mmu-miR-351-5p(1), mmu-miR-125a-5p(1), mmu-miR-370-3p(1), mmu-miR-758-3p(1), mmu-miR-325-3p(1), mmu-miR-207(1), mmu-miR-5101(1), mmu-miR-335-3p(1), mmu-miR-532-5p(1), mmu-miR-484(1), mmu-miR-181d-5p(1)
siRNAs for circular RNA silencing
Junction sequence
CCAGGAGAGTCAGACGCAGACCAAAC
siRNA sets
CTGCGTCTGACTCTCCTGG, TCTGCGTCTGACTCTCCTG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCCLIP1_2220_ORF_1
1.0683
0.422493467
1
4305
ORF sequence:
ATGGAACTAGAAAAGGACCTAGCATTGAGAGCACAGGAAGTAGCTGAGCTCCGAAGAAGGCTAGAGTCCAGTAAACCTCCTGGGGATGTGGATATGTCTCTCTCCCTTTTGCAAGAAATAAGTGCTTTGCAAGAAAAGCTAGAAGCCATCCATACTGACCACCAGGGCGAGATGACTTCTTTGAAGGAACACTTCGGAGCTCGAGAGGAGGCGTTTCAGAAGGAGATCAAGGCTCTGCACACGGCCACTGAGAAGCTTTCCAAAGAGAACGAGTCCCTGAGAAGCAAGCTCGACCACGCTAATAAGGAGAACTCCGATGTGATAGCTCTATGGAAGTCCAAACTGGAGACCGCCATAGCATCCCACCAGCAGGCAATGGAGGAGCTGAAGGTGTCCTTTAGCAAAGGCATTGGAACGGACTCCGCTGAATTTGCTGAGTTAAAGACACAGATAGAGAGACTGAGACTAGATTACCAGCACGAAATAGAAAGTTTACAGAGTAAACAGGACTCTGAGCGGTCTGCTCATGCTAAAGAGATGGAGACCATGCAGGCCAAGCTGATGAAGATCATTAAAGAGAAGGAGGACAGCCTGGAGGCCGTCAAAGCGAGACTGGACAGTGCAGAAGACCAGCACCTAGTGGAAATGGAGGACACGCTAAACAAACTGCAGGAGGCGGAGATTAAGAAAGAAAAGTTTGCCAGTACTTCAGAGGAGGCGGTCTCTGCTCAGACAAGGATGCAAGATACCGTAAATAAACTGCACCAAAAGGAGGAACAGTTTAACGTGTTGTCGTCTGAACTGGAGAAGTTGAGAGAAAATTTAACAGACATGGAGGCAAAATTTAAAGAGAAGGATGATCGAGAAGATCAGCTGGTAAAGGCAAAGGAAAAATTAGAAAACGACATTGCAGAAATAATGAAGATGTCAGGAGATAACTCTTCTCAGCTGACAAAGATGAATGATGAATTACGTCTGAAGGAAAGATCCGTGGAAGAACTCCAGCTCAAGCTTACAAAGGCCAATGAAAACGCCAGTTTTCTGCAGAAGAGTATTGGCGAAGTGACTCTTAAAGCTGAGCAGAGTCAGCAGCAAGCAGCCAGAAAACATGAAGAAGAAAAGAAAGAGTTGGAGGAAAAACTGTTGGAACTGGAAAAGAAGATGGAAACAAGCTACAACCAGTGTCAGGACCTGAAAGCTAAGTATGAAAAAGCCAGTTCTGAGACTAAAACAAAGCATGAAGAAATCCTGCAGAACCTCCAGAAGATGCTGGCGGACACAGAGGATAAGCTGAAGGCTGCTCAGGAGGCGAACAGAGATCTGATGCAGGACATGGAGGAGCTGAAAACACAGGCCGACAAAGCCAAAGCTGCTCAGACTGCAGAAGACGCCATGCAGATCATGGAACAGATGACCAAAGAGAAAACAGAAACGCTGGCCTCCTTGGAGGACACCAAGCAAACAAATGCAAGACTACAGAATGAATTGGACACACTTAAGGAAAACAACTTGAAAACTGTGGAAGAGCTGAACAAGTCAAAAGAACTGCTGAGTGTAGAGAACCAAAAAATGGAAGAATTCAAGAAAGAAATAGAAACCCTAAAGCAGGCAGCAGCTCAGAAGTCCCAGCAGCTTTCAGCACTGCAGGAAGAGAACGTCAAACTTGCCGAGGAGCTGGGGAGAACCCGGGACGAAGTCACAAGTCACCAGAAGCTGGAAGAAGAACGATCTGTACTCAATAATCAGTTGTTAGAAATGAAAAAGAGAGAATCTGAGTTCAGAAAAGACGCCGATGAAGAGAAAGCCTCCTTGCAGAAGTCGATCAGCCTCACCAGTGCCTTGCTCACAGAGAAGGACGCGGAGCTGGAGAAGCTGAGGAATGAGGTCACAGTGCTCAGGGGAGAGAATGCCACCGCCAAGTCCCTGCACTCAGTTGTGCAGACACTGGAGTCTGATAAGGTGAAGCTTGAGCTCAAGGTCAAAAACTTGGAACTTCAACTCAAGGAGAACAAGAGGCAGCTCAGCAGCTCCTCAGGTAACACTGATGCTCAGGCGGAAGAGGATGAGAGAGCCCAGGAGAGTCAGACGCAGACCAAACTGGAGCATGCCCGCACTAAGGAGCTTGAACAGAGCCTGCTCTTTGAAAAGACCAAAGCTGACAAACTCCAGAGGGAGTTAGAAGACACTAGGGTGGCTACCGTCTCAGAAAAGTCCCGAATAATGGAACTAGAAAAGGACCTAGCATTGAGAGCACAGGAAGTAGCTGAGCTCCGAAGAAGGCTAGAGTCCAGTAAACCTCCTGGGGATGTGGATATGTCTCTCTCCCTTTTGCAAGAAATAAGTGCTTTGCAAGAAAAGCTAGAAGCCATCCATACTGACCACCAGGGCGAGATGACTTCTTTGAAGGAACACTTCGGAGCTCGAGAGGAGGCGTTTCAGAAGGAGATCAAGGCTCTGCACACGGCCACTGAGAAGCTTTCCAAAGAGAACGAGTCCCTGAGAAGCAAGCTCGACCACGCTAATAAGGAGAACTCCGATGTGATAGCTCTATGGAAGTCCAAACTGGAGACCGCCATAGCATCCCACCAGCAGGCAATGGAGGAGCTGAAGGTGTCCTTTAGCAAAGGCATTGGAACGGACTCCGCTGAATTTGCTGAGTTAAAGACACAGATAGAGAGACTGAGACTAGATTACCAGCACGAAATAGAAAGTTTACAGAGTAAACAGGACTCTGAGCGGTCTGCTCATGCTAAAGAGATGGAGACCATGCAGGCCAAGCTGATGAAGATCATTAAAGAGAAGGAGGACAGCCTGGAGGCCGTCAAAGCGAGACTGGACAGTGCAGAAGACCAGCACCTAGTGGAAATGGAGGACACGCTAAACAAACTGCAGGAGGCGGAGATTAAGAAAGAAAAGTTTGCCAGTACTTCAGAGGAGGCGGTCTCTGCTCAGACAAGGATGCAAGATACCGTAAATAAACTGCACCAAAAGGAGGAACAGTTTAACGTGTTGTCGTCTGAACTGGAGAAGTTGAGAGAAAATTTAACAGACATGGAGGCAAAATTTAAAGAGAAGGATGATCGAGAAGATCAGCTGGTAAAGGCAAAGGAAAAATTAGAAAACGACATTGCAGAAATAATGAAGATGTCAGGAGATAACTCTTCTCAGCTGACAAAGATGAATGATGAATTACGTCTGAAGGAAAGATCCGTGGAAGAACTCCAGCTCAAGCTTACAAAGGCCAATGAAAACGCCAGTTTTCTGCAGAAGAGTATTGGCGAAGTGACTCTTAAAGCTGAGCAGAGTCAGCAGCAAGCAGCCAGAAAACATGAAGAAGAAAAGAAAGAGTTGGAGGAAAAACTGTTGGAACTGGAAAAGAAGATGGAAACAAGCTACAACCAGTGTCAGGACCTGAAAGCTAAGTATGAAAAAGCCAGTTCTGAGACTAAAACAAAGCATGAAGAAATCCTGCAGAACCTCCAGAAGATGCTGGCGGACACAGAGGATAAGCTGAAGGCTGCTCAGGAGGCGAACAGAGATCTGATGCAGGACATGGAGGAGCTGAAAACACAGGCCGACAAAGCCAAAGCTGCTCAGACTGCAGAAGACGCCATGCAGATCATGGAACAGATGACCAAAGAGAAAACAGAAACGCTGGCCTCCTTGGAGGACACCAAGCAAACAAATGCAAGACTACAGAATGAATTGGACACACTTAAGGAAAACAACTTGAAAACTGTGGAAGAGCTGAACAAGTCAAAAGAACTGCTGAGTGTAGAGAACCAAAAAATGGAAGAATTCAAGAAAGAAATAGAAACCCTAAAGCAGGCAGCAGCTCAGAAGTCCCAGCAGCTTTCAGCACTGCAGGAAGAGAACGTCAAACTTGCCGAGGAGCTGGGGAGAACCCGGGACGAAGTCACAAGTCACCAGAAGCTGGAAGAAGAACGATCTGTACTCAATAATCAGTTGTTAGAAATGAAAAAGAGAGAATCTGAGTTCAGAAAAGACGCCGATGAAGAGAAAGCCTCCTTGCAGAAGTCGATCAGCCTCACCAGTGCCTTGCTCACAGAGAAGGACGCGGAGCTGGAGAAGCTGAGGAATGAGGTCACAGTGCTCAGGGGAGAGAATGCCACCGCCAAGTCCCTGCACTCAGTTGTGCAGACACTGGAGTCTGATAAGGTGAAGCTTGAGCTCAAGGTCAAAAACTTGGAACTTCAACTCAAGGAGAACAAGAGGCAGCTCAGCAGCTCCTCAGGTAACACTGATGCTCAGGCGGAAGAGGATGAGAGAGCCCAGGAGAGTCAG
Peptide sequence:
MELEKDLALRAQEVAELRRRLESSKPPGDVDMSLSLLQEISALQEKLEAIHTDHQGEMTSLKEHFGAREEAFQKEIKALHTATEKLSKENESLRSKLDHANKENSDVIALWKSKLETAIASHQQAMEELKVSFSKGIGTDSAEFAELKTQIERLRLDYQHEIESLQSKQDSERSAHAKEMETMQAKLMKIIKEKEDSLEAVKARLDSAEDQHLVEMEDTLNKLQEAEIKKEKFASTSEEAVSAQTRMQDTVNKLHQKEEQFNVLSSELEKLRENLTDMEAKFKEKDDREDQLVKAKEKLENDIAEIMKMSGDNSSQLTKMNDELRLKERSVEELQLKLTKANENASFLQKSIGEVTLKAEQSQQQAARKHEEEKKELEEKLLELEKKMETSYNQCQDLKAKYEKASSETKTKHEEILQNLQKMLADTEDKLKAAQEANRDLMQDMEELKTQADKAKAAQTAEDAMQIMEQMTKEKTETLASLEDTKQTNARLQNELDTLKENNLKTVEELNKSKELLSVENQKMEEFKKEIETLKQAAAQKSQQLSALQEENVKLAEELGRTRDEVTSHQKLEEERSVLNNQLLEMKKRESEFRKDADEEKASLQKSISLTSALLTEKDAELEKLRNEVTVLRGENATAKSLHSVVQTLESDKVKLELKVKNLELQLKENKRQLSSSSGNTDAQAEEDERAQESQTQTKLEHARTKELEQSLLFEKTKADKLQRELEDTRVATVSEKSRIMELEKDLALRAQEVAELRRRLESSKPPGDVDMSLSLLQEISALQEKLEAIHTDHQGEMTSLKEHFGAREEAFQKEIKALHTATEKLSKENESLRSKLDHANKENSDVIALWKSKLETAIASHQQAMEELKVSFSKGIGTDSAEFAELKTQIERLRLDYQHEIESLQSKQDSERSAHAKEMETMQAKLMKIIKEKEDSLEAVKARLDSAEDQHLVEMEDTLNKLQEAEIKKEKFASTSEEAVSAQTRMQDTVNKLHQKEEQFNVLSSELEKLRENLTDMEAKFKEKDDREDQLVKAKEKLENDIAEIMKMSGDNSSQLTKMNDELRLKERSVEELQLKLTKANENASFLQKSIGEVTLKAEQSQQQAARKHEEEKKELEEKLLELEKKMETSYNQCQDLKAKYEKASSETKTKHEEILQNLQKMLADTEDKLKAAQEANRDLMQDMEELKTQADKAKAAQTAEDAMQIMEQMTKEKTETLASLEDTKQTNARLQNELDTLKENNLKTVEELNKSKELLSVENQKMEEFKKEIETLKQAAAQKSQQLSALQEENVKLAEELGRTRDEVTSHQKLEEERSVLNNQLLEMKKRESEFRKDADEEKASLQKSISLTSALLTEKDAELEKLRNEVTVLRGENATAKSLHSVVQTLESDKVKLELKVKNLELQLKENKRQLSSSSGNTDAQAEEDERAQESQ
IRESfinder result
IRESfinder score
0.344594742
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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