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mmu_circArid4b_1545
Basic information of circular RNA
PanCircBase ID:
mmu_circArid4b_1545
mm39_Chr. Position ID:
chr13|14361401|14368166|+
Gene name:
Arid4b
Transcript:
ENSMUST00000110536.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
19,20,21
Exon/intron offsets:
0,4326,6549
Genomic length:
6765
Exon/intron sizes in nt:
1,21,51,14,216
Flanking exon/introns:
chr13:14359090-14361401|chr13:14368166-14369914
Splice length:
1545
Other database IDs:
CIRCpedia: MMU_CIRCpedia_9136, circAtlas: mmu-Arid4b_0026
circBase: hsa_circ_0017043, circAtlas: hsa-ARID4B_0035, CIRCpedia: HSA_CIRCpedia_30680
Human Ortholog IDs:
Mature spliced Sequence:
CTTCTGAAAGTTCGGCTGAAGACAGTGAGCAGGAAGATGAGAGATGTACTCAGGACGTAGATAACATTGGCAAAGACGAATCAAAGGTGGAACATTCAACCCACAGCAGAAATGAACTGATTTCAAAAGAGGAACAGAGTAGTCCATCTTTGCTAGAAGAAAACAAAGTCCATACAGATTTGGTAATAGCCAAAACAGTGTCAAAATCTCCAGAAAGATTAAGAAAAGATATGGAAGCAATATCGGAAGATACTGATTTTGAAGAGGAAGATGAAATCACAAAGAAGAGAAAGGATGTTAAAAAGGACACAACAGACAAGGCTTTAAAGCCACAAACAAAACGTGGGAAAAGACGGTATTGCAGTGCAGATGAATGTTTGCAGACTGGATCCCCTGGCAAGAAGGAAGACAGAACCAAGAGTAAAGAGCCGCTCTGCACAGAAAACAGTAGTAACAGCTCCTCAGATGAAGATGAAGAAGAAAAGTCCAAAGCAAAGATGACACCAACCAAGAAATATAATGGCTTAGAAGAAAAGAGAAAATCTCTGCGGACAACTAGTTTCTATTCAGGATTTTCAGAAGTAGCAGAAAAAAGGATAAAGCTTTTAAATAACTCTGATGAAAGACTTCAGAACAACAGGGCTAAAGATAGAAAAGATGTCTGGTCAAGTATTCAGGGACAGTGGCCTAAGAAAACGCTAAAGGAGCTTTTCTCTGACTCGGACACTGAGGCTGCAGCTTCTCCACCCCATCCTGCCCCAGATGAGGGGGCAGTAGAGGAGTCACTGCAGACTGTGGCAGAAGAGGAGAGTTGTTCACCCATTATGGAGCTAGAAAAGCCACTACCTGCCAGTGTTGACAATAAGCCCATTGAAGAAAAACCCCTAGAAGTTAGTGATAGGAAAACAGAATTTCCGAGCAGTGGCAGTAATTCAGTGCTCAATACCCCACCTACCACACCAGAGTCGCCTTCTTCAGTCACTATAACAGAAGCTAGTCAGCAGCAGTCTTCTGTCACAGTGTCAGTGCCCCTGCCTCCAAACCAGGAAGAGGTTCGAAGCATTAAGAGTGAAACTGACAGCACAATTGAGGTGGACAGTGTTGTGGGGGAGCTCCAGGACCTCCAGTCGGAGGGGAATAGCTCACCAGCAGGCTTTGATGCGAGCGTGAGTTCCAGCAGTAGCAATCAGCCAGAACCAGATAACCCAGAAAAAGCCTGTACAGGTCAGAAAAGAGTGAAAGATACTCAGGGAGTAGGAAGTTCATCAAAAAAGCAGAAGAGAAGCCATAAAGCCACCGTGGTGAACAACAAAAAGAAGGGAAAAGGCACAAACAGTAGTGACAGTGAAGAACTCTCAGCTGGTGAAAGTGTGACTAAGACTCAGACAATCAAGTCAGTCCCCACCGGAATGAAGACCCACAACAGCAAGTCTCCAGCAAGGGTACAGTCTCCAGGAAAAGGTGGCAGGAATGGGGATAAAGACCCTGATCTCAAGGAGCCTAGTAACCGGCTTCCCAAGGTTTACAAGTGGAGTTTTCAGACGT
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ACCCTGATCTCAAGGAGCCT
59.96
CACCTTTGATTCGTCTTTGCCA
59.71
152
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ACCCTGATCTCAAGGAGCCT
59.96
CCACCTTTGATTCGTCTTTGCC
60.35
153
PCR template sequence:
CAGTCTCCAGGAAAAGGTGGCAGGAATGGGGATAAAGACCCTGATCTCAAGGAGCCTAGTAACCGGCTTCCCAAGGTTTACAAGTGGAGTTTTCAGACGTCTTCTGAAAGTTCGGCTGAAGACAGTGAGCAGGAAGATGAGAGATGTACTCAGGACGTAGATAACATTGGCAAAGACGAATCAAAGGTGGAACATTCAAC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
17
Interacting miRNAs (#binding sites)
mmu-miR-200a-3p(2), mmu-miR-141-3p(2), mmu-miR-670-5p(2), mmu-miR-1904(2), mmu-miR-429-3p(1), mmu-miR-200b-3p(1), mmu-miR-135a-5p(1), mmu-miR-200c-3p(1), mmu-miR-709(1), mmu-miR-181b-5p(1), mmu-miR-125a-5p(1), mmu-miR-676-3p(1), mmu-miR-382-5p(1), mmu-miR-5101(1), mmu-miR-3087-3p(1), mmu-miR-1199-5p(1), mmu-miR-181d-5p(1)
siRNAs for circular RNA silencing
Junction sequence
AGTTTTCAGACGTCTTCTGAAAGTTC
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCARID4B_1545_ORF_1
1.0464
0.222293677
0.999999987
2859
ORF sequence:
ATGGAAGCAATATCGGAAGATACTGATTTTGAAGAGGAAGATGAAATCACAAAGAAGAGAAAGGATGTTAAAAAGGACACAACAGACAAGGCTTTAAAGCCACAAACAAAACGTGGGAAAAGACGGTATTGCAGTGCAGATGAATGTTTGCAGACTGGATCCCCTGGCAAGAAGGAAGACAGAACCAAGAGTAAAGAGCCGCTCTGCACAGAAAACAGTAGTAACAGCTCCTCAGATGAAGATGAAGAAGAAAAGTCCAAAGCAAAGATGACACCAACCAAGAAATATAATGGCTTAGAAGAAAAGAGAAAATCTCTGCGGACAACTAGTTTCTATTCAGGATTTTCAGAAGTAGCAGAAAAAAGGATAAAGCTTTTAAATAACTCTGATGAAAGACTTCAGAACAACAGGGCTAAAGATAGAAAAGATGTCTGGTCAAGTATTCAGGGACAGTGGCCTAAGAAAACGCTAAAGGAGCTTTTCTCTGACTCGGACACTGAGGCTGCAGCTTCTCCACCCCATCCTGCCCCAGATGAGGGGGCAGTAGAGGAGTCACTGCAGACTGTGGCAGAAGAGGAGAGTTGTTCACCCATTATGGAGCTAGAAAAGCCACTACCTGCCAGTGTTGACAATAAGCCCATTGAAGAAAAACCCCTAGAAGTTAGTGATAGGAAAACAGAATTTCCGAGCAGTGGCAGTAATTCAGTGCTCAATACCCCACCTACCACACCAGAGTCGCCTTCTTCAGTCACTATAACAGAAGCTAGTCAGCAGCAGTCTTCTGTCACAGTGTCAGTGCCCCTGCCTCCAAACCAGGAAGAGGTTCGAAGCATTAAGAGTGAAACTGACAGCACAATTGAGGTGGACAGTGTTGTGGGGGAGCTCCAGGACCTCCAGTCGGAGGGGAATAGCTCACCAGCAGGCTTTGATGCGAGCGTGAGTTCCAGCAGTAGCAATCAGCCAGAACCAGATAACCCAGAAAAAGCCTGTACAGGTCAGAAAAGAGTGAAAGATACTCAGGGAGTAGGAAGTTCATCAAAAAAGCAGAAGAGAAGCCATAAAGCCACCGTGGTGAACAACAAAAAGAAGGGAAAAGGCACAAACAGTAGTGACAGTGAAGAACTCTCAGCTGGTGAAAGTGTGACTAAGACTCAGACAATCAAGTCAGTCCCCACCGGAATGAAGACCCACAACAGCAAGTCTCCAGCAAGGGTACAGTCTCCAGGAAAAGGTGGCAGGAATGGGGATAAAGACCCTGATCTCAAGGAGCCTAGTAACCGGCTTCCCAAGGTTTACAAGTGGAGTTTTCAGACGTCTTCTGAAAGTTCGGCTGAAGACAGTGAGCAGGAAGATGAGAGATGTACTCAGGACGTAGATAACATTGGCAAAGACGAATCAAAGGTGGAACATTCAACCCACAGCAGAAATGAACTGATTTCAAAAGAGGAACAGAGTAGTCCATCTTTGCTAGAAGAAAACAAAGTCCATACAGATTTGGTAATAGCCAAAACAGTGTCAAAATCTCCAGAAAGATTAAGAAAAGATATGGAAGCAATATCGGAAGATACTGATTTTGAAGAGGAAGATGAAATCACAAAGAAGAGAAAGGATGTTAAAAAGGACACAACAGACAAGGCTTTAAAGCCACAAACAAAACGTGGGAAAAGACGGTATTGCAGTGCAGATGAATGTTTGCAGACTGGATCCCCTGGCAAGAAGGAAGACAGAACCAAGAGTAAAGAGCCGCTCTGCACAGAAAACAGTAGTAACAGCTCCTCAGATGAAGATGAAGAAGAAAAGTCCAAAGCAAAGATGACACCAACCAAGAAATATAATGGCTTAGAAGAAAAGAGAAAATCTCTGCGGACAACTAGTTTCTATTCAGGATTTTCAGAAGTAGCAGAAAAAAGGATAAAGCTTTTAAATAACTCTGATGAAAGACTTCAGAACAACAGGGCTAAAGATAGAAAAGATGTCTGGTCAAGTATTCAGGGACAGTGGCCTAAGAAAACGCTAAAGGAGCTTTTCTCTGACTCGGACACTGAGGCTGCAGCTTCTCCACCCCATCCTGCCCCAGATGAGGGGGCAGTAGAGGAGTCACTGCAGACTGTGGCAGAAGAGGAGAGTTGTTCACCCATTATGGAGCTAGAAAAGCCACTACCTGCCAGTGTTGACAATAAGCCCATTGAAGAAAAACCCCTAGAAGTTAGTGATAGGAAAACAGAATTTCCGAGCAGTGGCAGTAATTCAGTGCTCAATACCCCACCTACCACACCAGAGTCGCCTTCTTCAGTCACTATAACAGAAGCTAGTCAGCAGCAGTCTTCTGTCACAGTGTCAGTGCCCCTGCCTCCAAACCAGGAAGAGGTTCGAAGCATTAAGAGTGAAACTGACAGCACAATTGAGGTGGACAGTGTTGTGGGGGAGCTCCAGGACCTCCAGTCGGAGGGGAATAGCTCACCAGCAGGCTTTGATGCGAGCGTGAGTTCCAGCAGTAGCAATCAGCCAGAACCAGATAACCCAGAAAAAGCCTGTACAGGTCAGAAAAGAGTGAAAGATACTCAGGGAGTAGGAAGTTCATCAAAAAAGCAGAAGAGAAGCCATAAAGCCACCGTGGTGAACAACAAAAAGAAGGGAAAAGGCACAAACAGTAGTGACAGTGAAGAACTCTCAGCTGGTGAAAGTGTGACTAAGACTCAGACAATCAAGTCAGTCCCCACCGGAATGAAGACCCACAACAGCAAGTCTCCAGCAAGGGTACAGTCTCCAGGAAAAGGTGGCAGGAATGGGGATAAAGACCCTGATCTCAAGGAGCCTAGTAACCGGCTTCCCAAGGTTTACAAGTGGAGTTTTCAGACG
Peptide sequence:
MEAISEDTDFEEEDEITKKRKDVKKDTTDKALKPQTKRGKRRYCSADECLQTGSPGKKEDRTKSKEPLCTENSSNSSSDEDEEEKSKAKMTPTKKYNGLEEKRKSLRTTSFYSGFSEVAEKRIKLLNNSDERLQNNRAKDRKDVWSSIQGQWPKKTLKELFSDSDTEAAASPPHPAPDEGAVEESLQTVAEEESCSPIMELEKPLPASVDNKPIEEKPLEVSDRKTEFPSSGSNSVLNTPPTTPESPSSVTITEASQQQSSVTVSVPLPPNQEEVRSIKSETDSTIEVDSVVGELQDLQSEGNSSPAGFDASVSSSSSNQPEPDNPEKACTGQKRVKDTQGVGSSSKKQKRSHKATVVNNKKKGKGTNSSDSEELSAGESVTKTQTIKSVPTGMKTHNSKSPARVQSPGKGGRNGDKDPDLKEPSNRLPKVYKWSFQTSSESSAEDSEQEDERCTQDVDNIGKDESKVEHSTHSRNELISKEEQSSPSLLEENKVHTDLVIAKTVSKSPERLRKDMEAISEDTDFEEEDEITKKRKDVKKDTTDKALKPQTKRGKRRYCSADECLQTGSPGKKEDRTKSKEPLCTENSSNSSSDEDEEEKSKAKMTPTKKYNGLEEKRKSLRTTSFYSGFSEVAEKRIKLLNNSDERLQNNRAKDRKDVWSSIQGQWPKKTLKELFSDSDTEAAASPPHPAPDEGAVEESLQTVAEEESCSPIMELEKPLPASVDNKPIEEKPLEVSDRKTEFPSSGSNSVLNTPPTTPESPSSVTITEASQQQSSVTVSVPLPPNQEEVRSIKSETDSTIEVDSVVGELQDLQSEGNSSPAGFDASVSSSSSNQPEPDNPEKACTGQKRVKDTQGVGSSSKKQKRSHKATVVNNKKKGKGTNSSDSEELSAGESVTKTQTIKSVPTGMKTHNSKSPARVQSPGKGGRNGDKDPDLKEPSNRLPKVYKWSFQT
IRESfinder result
IRESfinder score
0.522431339
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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