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mmu_circZdhhc4_749
Basic information of circular RNA
PanCircBase ID:
mmu_circZdhhc4_749
mm39_Chr. Position ID:
chr5|143305985|143311978|-
Gene name:
Zdhhc4
Transcript:
ENSMUST00000001900.9
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
5
Exon/intron indexes:
7,6,5,4,3
Exon/intron offsets:
0,1538,3901,4654,5868
Genomic length:
5993
Exon/intron sizes in nt:
2,45,12,61,79,74,125
Flanking exon/introns:
chr5:143302587-143305985|chr5:143311978-143314145
Splice length:
749
Other database IDs:
circAtlas: mmu-Zdhhc4_0005
Human Ortholog IDs:
Mature spliced Sequence:
CCTCCAGCATGGACTTCCTGGTTCTCTTCTTGTTCTACTTGGCCTTCTTATTGATTTGTGTTGTCCTGATCTGCATCTTCACAAAAAGCCAGCGTTTGAAGGCCGTGGTCCTTGGAGGAGCACAGGTGTGCTCCAGGGTAATCCCGCAGTGCCTCCAGAGGGCCGTGCAGACGCTTCTTCATCAGCTCTTCCACACACGCCACCCCACCTTCATCGTCTTGCACCTGCTCTTGCAAGGGCTAGTGTATGCAGAATACACCTGCGAGGTCTTCGGCTATTGCCGGGAGCTGGAGTTCTCTCTGCCTTACCTTCTCCTGCCCTATGTGCTGCTAAGCGTGAACCTGGTGTTCTTCACCCTGACTTGTGCCGCCAATCCTGGTACCATCACTAAAGCAAACGAATCATTTCTTCTGCAAGTCTATAAATTCGATGATGTGATGTTTCCAAAGAACTCGAGGTGCCCCACTTGCGATTTAAGGAAACCAGCCCGCTCCAAGCACTGCAGGTTGTGTGACCGCTGTGTGCACCGGTTCGACCATCACTGTGTTTGGGTGAACAACTGCATCGGGGCCTGGAACACCAGGTACTTCCTCATTTACCTCCTGACGCTGACGGCTTCTGCTGCCACCATAGCCACCGTGACTGCTGCCTTTCTGCTCCGCCTAGTGACAGTGTCTGATCTCTACCAGGAAACTTACCTAGATGACGTGGGGCATTTCCAGGCTGTGGACACTGTCTTTCTTATTCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TACCTAGATGACGTGGGGCA
60.03
ACGCTGGCTTTTTGTGAAGA
58.61
149
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TACCTAGATGACGTGGGGCA
60.03
TCAAACGCTGGCTTTTTGTGA
59.53
153
PCR template sequence:
CTTTCTGCTCCGCCTAGTGACAGTGTCTGATCTCTACCAGGAAACTTACCTAGATGACGTGGGGCATTTCCAGGCTGTGGACACTGTCTTTCTTATTCAGCCTCCAGCATGGACTTCCTGGTTCTCTTCTTGTTCTACTTGGCCTTCTTATTGATTTGTGTTGTCCTGATCTGCATCTTCACAAAAAGCCAGCGTTTGAA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
8
Interacting miRNAs (#binding sites)
mmu-miR-16-5p(1), mmu-miR-15a-5p(1), mmu-miR-15b-5p(1), mmu-miR-146a-5p(1), mmu-miR-185-5p(1), mmu-miR-29b-1-5p(1), mmu-miR-383-5p(1), mmu-miR-5101(1)
siRNAs for circular RNA silencing
Junction sequence
CTTTCTTATTCAGCCTCCAGCATGGA
siRNA sets
ATGCTGGAGGCTGAATAAG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCZDHHC4_749_ORF_1
1.0381
0.17642823
0.957331697
795
ORF sequence:
ATGGACTTCCTGGTTCTCTTCTTGTTCTACTTGGCCTTCTTATTGATTTGTGTTGTCCTGATCTGCATCTTCACAAAAAGCCAGCGTTTGAAGGCCGTGGTCCTTGGAGGAGCACAGGTGTGCTCCAGGGTAATCCCGCAGTGCCTCCAGAGGGCCGTGCAGACGCTTCTTCATCAGCTCTTCCACACACGCCACCCCACCTTCATCGTCTTGCACCTGCTCTTGCAAGGGCTAGTGTATGCAGAATACACCTGCGAGGTCTTCGGCTATTGCCGGGAGCTGGAGTTCTCTCTGCCTTACCTTCTCCTGCCCTATGTGCTGCTAAGCGTGAACCTGGTGTTCTTCACCCTGACTTGTGCCGCCAATCCTGGTACCATCACTAAAGCAAACGAATCATTTCTTCTGCAAGTCTATAAATTCGATGATGTGATGTTTCCAAAGAACTCGAGGTGCCCCACTTGCGATTTAAGGAAACCAGCCCGCTCCAAGCACTGCAGGTTGTGTGACCGCTGTGTGCACCGGTTCGACCATCACTGTGTTTGGGTGAACAACTGCATCGGGGCCTGGAACACCAGGTACTTCCTCATTTACCTCCTGACGCTGACGGCTTCTGCTGCCACCATAGCCACCGTGACTGCTGCCTTTCTGCTCCGCCTAGTGACAGTGTCTGATCTCTACCAGGAAACTTACCTAGATGACGTGGGGCATTTCCAGGCTGTGGACACTGTCTTTCTTATTCAGCCTCCAGCATGGACTTCCTGGTTCTCTTCTTGTTCTACTTGGCCTTCTTATTGA
Peptide sequence:
MDFLVLFLFYLAFLLICVVLICIFTKSQRLKAVVLGGAQVCSRVIPQCLQRAVQTLLHQLFHTRHPTFIVLHLLLQGLVYAEYTCEVFGYCRELEFSLPYLLLPYVLLSVNLVFFTLTCAANPGTITKANESFLLQVYKFDDVMFPKNSRCPTCDLRKPARSKHCRLCDRCVHRFDHHCVWVNNCIGAWNTRYFLIYLLTLTASAATIATVTAAFLLRLVTVSDLYQETYLDDVGHFQAVDTVFLIQPPAWTSWFSSCSTWPSY
IRESfinder result
IRESfinder score
0.706702637
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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