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mmu_circZfp839_873
Basic information of circular RNA
PanCircBase ID:
mmu_circZfp839_873
mm39_Chr. Position ID:
chr12|110821433|110822306|+
Gene name:
Zfp839
Transcript:
ENSMUST00000170060.4
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
1
Exon/intron indexes:
2
Exon/intron offsets:
0
Genomic length:
873
Exon/intron sizes in nt:
873
Flanking exon/introns:
chr12:110816997-110821433|chr12:110822306-110827229
Splice length:
873
Other database IDs:
CIRCpedia: MMU_CIRCpedia_3021, circAtlas: mmu-Zfp839_0001
circBase: hsa_circ_0033403, circAtlas: hsa-ZNF839_0001, CIRCpedia: HSA_CIRCpedia_11454
Human Ortholog IDs:
Mature spliced Sequence:
GAACTTGAAGCTATTTGTGTCAAGGTATCTGGTGACACCAAACTTCAGGAAAGAACAATGCACCCCCTGGCCACCATCCAACTCAAAACAGCAAGACAAAGTCAGCTACCTGGGAGAAGCCCCAGCAAGGGTGTGTGTGTCTCCAGCCCTCAGCTGCTCAGGGTGCAGGCCCTGGGGAGGACGGAGTCACAGCTGCAGTTCCTTAGACGCTCCCCTCAGCCTCCTGCTCCTCGGGTGTTTGTACAGAAGATGCTGCCAGACCTCCATCCAGTCCCTTTGAAGAGAGCCAAGGCCCACGAGACTGCAAGCGGGTGTGGTATCGCTCTCAGCCCGGTGGCAGCCTCGGGTACACGCGCAGTTGCAGCTGTGCCATCTAGCCTGTTGATTTCCAGCTTGCACACAGCACGTACTGAGAAGTCAAAGAAATCTCTAAGGGTAAGAACTCGATCTGGACGGGTATCCCGGCCTCCCAGGTATAAAGCCAGAGACTACAAGTTCATCAAAACCGAGGACTTAGCAGAAGGGCGTCTGTCGGATTCTGATGACTACTCAGAGCTGAGCGTGGAGGAAGAGGAGGAGCCTCCGGAGAAGCCTGCCTTCTTCGACGTTGAAGTCTGTGCCCTGAGACCCAAGGCCTTTAAGTGTCACACGTGTGGAAAGTCCTACATAGGGAAAGGGGGGCTGTCGAGGCACTGTAAGCTCAACCCAGGCCATAGCCGGCTGCAGCCTGGGGTGCTGCTGTTGGAGAAAGCTGATGGGGGCCCGACCCTGGGCTGCACAGACTCAAAGACCGGAGGCCTTGCCGGCCCGGAACCGTCCACAGCAGCTGCTCTCTGTGTGGAGGAGGCAGAGTCAGCTTGGCATACCCTACAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GCACAGACTCAAAGACCGGA
59.97
CCAGGGGGTGCATTGTTCTT
60.54
168
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GCACAGACTCAAAGACCGGA
59.97
GGGGGTGCATTGTTCTTTCC
59.39
165
PCR template sequence:
CTGCACAGACTCAAAGACCGGAGGCCTTGCCGGCCCGGAACCGTCCACAGCAGCTGCTCTCTGTGTGGAGGAGGCAGAGTCAGCTTGGCATACCCTACAGGAACTTGAAGCTATTTGTGTCAAGGTATCTGGTGACACCAAACTTCAGGAAAGAACAATGCACCCCCTGGCCACCATCCAACTCAAAACAGCAAGACAAA
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-210-3p(1), mmu-miR-15a-5p(1), mmu-miR-103-3p(1), mmu-miR-322-5p(1), mmu-miR-15b-5p(1), mmu-miR-33-5p(1), mmu-miR-351-5p(1), mmu-miR-183-5p(1), mmu-miR-107-3p(1), mmu-miR-342-5p(1), mmu-miR-207(1)
siRNAs for circular RNA silencing
Junction sequence
GCATACCCTACAGGAACTTGAAGCTA
siRNA sets
GCTTCAAGTTCCTGTAGGG, TAGCTTCAAGTTCCTGTAG, AAGTTCCTGTAGGGTATGC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCZFP839_873_ORF_1
0.7497
0.222386633
0.999899761
1689
ORF sequence:
ATGCACCCCCTGGCCACCATCCAACTCAAAACAGCAAGACAAAGTCAGCTACCTGGGAGAAGCCCCAGCAAGGGTGTGTGTGTCTCCAGCCCTCAGCTGCTCAGGGTGCAGGCCCTGGGGAGGACGGAGTCACAGCTGCAGTTCCTTAGACGCTCCCCTCAGCCTCCTGCTCCTCGGGTGTTTGTACAGAAGATGCTGCCAGACCTCCATCCAGTCCCTTTGAAGAGAGCCAAGGCCCACGAGACTGCAAGCGGGTGTGGTATCGCTCTCAGCCCGGTGGCAGCCTCGGGTACACGCGCAGTTGCAGCTGTGCCATCTAGCCTGTTGATTTCCAGCTTGCACACAGCACGTACTGAGAAGTCAAAGAAATCTCTAAGGGTAAGAACTCGATCTGGACGGGTATCCCGGCCTCCCAGGTATAAAGCCAGAGACTACAAGTTCATCAAAACCGAGGACTTAGCAGAAGGGCGTCTGTCGGATTCTGATGACTACTCAGAGCTGAGCGTGGAGGAAGAGGAGGAGCCTCCGGAGAAGCCTGCCTTCTTCGACGTTGAAGTCTGTGCCCTGAGACCCAAGGCCTTTAAGTGTCACACGTGTGGAAAGTCCTACATAGGGAAAGGGGGGCTGTCGAGGCACTGTAAGCTCAACCCAGGCCATAGCCGGCTGCAGCCTGGGGTGCTGCTGTTGGAGAAAGCTGATGGGGGCCCGACCCTGGGCTGCACAGACTCAAAGACCGGAGGCCTTGCCGGCCCGGAACCGTCCACAGCAGCTGCTCTCTGTGTGGAGGAGGCAGAGTCAGCTTGGCATACCCTACAGGAACTTGAAGCTATTTGTGTCAAGGTATCTGGTGACACCAAACTTCAGGAAAGAACAATGCACCCCCTGGCCACCATCCAACTCAAAACAGCAAGACAAAGTCAGCTACCTGGGAGAAGCCCCAGCAAGGGTGTGTGTGTCTCCAGCCCTCAGCTGCTCAGGGTGCAGGCCCTGGGGAGGACGGAGTCACAGCTGCAGTTCCTTAGACGCTCCCCTCAGCCTCCTGCTCCTCGGGTGTTTGTACAGAAGATGCTGCCAGACCTCCATCCAGTCCCTTTGAAGAGAGCCAAGGCCCACGAGACTGCAAGCGGGTGTGGTATCGCTCTCAGCCCGGTGGCAGCCTCGGGTACACGCGCAGTTGCAGCTGTGCCATCTAGCCTGTTGATTTCCAGCTTGCACACAGCACGTACTGAGAAGTCAAAGAAATCTCTAAGGGTAAGAACTCGATCTGGACGGGTATCCCGGCCTCCCAGGTATAAAGCCAGAGACTACAAGTTCATCAAAACCGAGGACTTAGCAGAAGGGCGTCTGTCGGATTCTGATGACTACTCAGAGCTGAGCGTGGAGGAAGAGGAGGAGCCTCCGGAGAAGCCTGCCTTCTTCGACGTTGAAGTCTGTGCCCTGAGACCCAAGGCCTTTAAGTGTCACACGTGTGGAAAGTCCTACATAGGGAAAGGGGGGCTGTCGAGGCACTGTAAGCTCAACCCAGGCCATAGCCGGCTGCAGCCTGGGGTGCTGCTGTTGGAGAAAGCTGATGGGGGCCCGACCCTGGGCTGCACAGACTCAAAGACCGGAGGCCTTGCCGGCCCGGAACCGTCCACAGCAGCTGCTCTCTGTGTGGAGGAGGCAGAGTCAGCTTGGCATACCCTACAG
Peptide sequence:
MHPLATIQLKTARQSQLPGRSPSKGVCVSSPQLLRVQALGRTESQLQFLRRSPQPPAPRVFVQKMLPDLHPVPLKRAKAHETASGCGIALSPVAASGTRAVAAVPSSLLISSLHTARTEKSKKSLRVRTRSGRVSRPPRYKARDYKFIKTEDLAEGRLSDSDDYSELSVEEEEEPPEKPAFFDVEVCALRPKAFKCHTCGKSYIGKGGLSRHCKLNPGHSRLQPGVLLLEKADGGPTLGCTDSKTGGLAGPEPSTAAALCVEEAESAWHTLQELEAICVKVSGDTKLQERTMHPLATIQLKTARQSQLPGRSPSKGVCVSSPQLLRVQALGRTESQLQFLRRSPQPPAPRVFVQKMLPDLHPVPLKRAKAHETASGCGIALSPVAASGTRAVAAVPSSLLISSLHTARTEKSKKSLRVRTRSGRVSRPPRYKARDYKFIKTEDLAEGRLSDSDDYSELSVEEEEEPPEKPAFFDVEVCALRPKAFKCHTCGKSYIGKGGLSRHCKLNPGHSRLQPGVLLLEKADGGPTLGCTDSKTGGLAGPEPSTAAALCVEEAESAWHTLQ
IRESfinder result
IRESfinder score
0.426082768
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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