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mmu_circHectd4_992
Basic information of circular RNA
PanCircBase ID:
mmu_circHectd4_992
mm39_Chr. Position ID:
chr5|121396761|121415896|+
Gene name:
Hectd4
Transcript:
ENSMUST00000042614.13
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
7
Exon/intron indexes:
3,4,5,6,7,8,9
Exon/intron offsets:
0,1106,3800,5186,7536,14908,18976
Genomic length:
19135
Exon/intron sizes in nt:
9,01,31,10,91,39,17,11,00,000
Flanking exon/introns:
chr5:121392441-121396761|chr5:121415896-121419118
Splice length:
992
Other database IDs:
CIRCpedia: MMU_CIRCpedia_227442, circAtlas: mmu-Gm15800_0065
Human Ortholog IDs:
Mature spliced Sequence:
GGGGTCACTGAAGACCTTTGTCCACACAGTTCACCTGCTGCAGAGACAGACTGAGCTGGGCTCCCTGCCTGTCGCCGATGTTTTATATAGGTTGCTGCTTTTGGAAGGGGGACCTGGATCCCCATCCTGTTTGCTTGGGGGCAAACACATAGTATCTTGGGGATATGAGGACATGCTGCCAGCACCAGACAGCAACACTGGCTCCAGCTCTGAAAACAAAGATGCTGACTTGGGCCGCTGTCTCACCGCAGATGGGCATTACCTGTACACTACCAACTCAGCCGGAAGAGGAGTGAGCAAGCTGGGCTCTGGACTGCATGGCACGCTCAGAGGGTTTGTGTACTGTCGCAATGAGGAGCTAGAGCCAGGGTGGGTGGCGTACGGCAATGGCCACCTACTCCATCGGCCTGTGTCTTTTGACAATAAACCTCACTCCCTTTTCCAGGTCATAGACCAGAACACCCTGCAGGTGTGCCAGACAGTGCCCATGCCCGCCAGCCCCCTTCCTGTGGGCAGCACCATGAGCACTGTGCACCTTTCCTCAGATGGCACTTACTTCTACTGGATCTGGTCCCCTGCCAGTTTAAATGAGAAAACCCCAAAGGGACACTCTGTCTTCATGGACATTTTTGAACTTGTGGTGGAAAATGGGGTATTTGTAGCCAACCCGCTTCAGGAACGCACAATCCTAATGAGAAAAGAGGGTGAGTCTGCTAAAAGCATTAATGAGATGCTCCTGAGCAGACTGTCTCGGTACAGAGCCTCTCCATCGGCGACTCTCGCGGCCCTGACTGGCTCCACCATCTCCAACACGCTGAAGGAGGATCAAGCAGCAAATACTAGCTGTGGCCTTCCTCTGAAAATGCTGCGGAAGACGCCCATGTACACCTGTGGCACGTACTTGGTGATGCTGGTCCCACCTCCAGGAGGGTCAGGCAGCTCTGCCACCCGCTCTCTCTTTGGTGGAACAAGTGGTCTGTCGTCTTTAAAGA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GCACGTACTTGGTGATGCTG
59.56
CTGTCTCTGCAGCAGGTGAA
59.97
148
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GCACGTACTTGGTGATGCTG
59.56
GTCTCTGCAGCAGGTGAACT
59.97
146
PCR template sequence:
GGCACGTACTTGGTGATGCTGGTCCCACCTCCAGGAGGGTCAGGCAGCTCTGCCACCCGCTCTCTCTTTGGTGGAACAAGTGGTCTGTCGTCTTTAAAGAGGGGTCACTGAAGACCTTTGTCCACACAGTTCACCTGCTGCAGAGACAGACTGAGCTGGGCTCCCTGCCTGTCGCCGATGTTTTATATAGGTTGCTGCTT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
9
Interacting miRNAs (#binding sites)
mmu-miR-210-3p(1), mmu-miR-16-5p(1), mmu-miR-199a-5p(1), mmu-miR-103-3p(1), mmu-miR-322-5p(1), mmu-miR-18a-5p(1), mmu-miR-149-5p(1), mmu-miR-107-3p(1), mmu-miR-338-3p(1)
siRNAs for circular RNA silencing
Junction sequence
TCGTCTTTAAAGAGGGGTCACTGAAG
siRNA sets
GTGACCCCTCTTTAAAGAC, AGTGACCCCTCTTTAAAGA, TGACCCCTCTTTAAAGACG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCHECTD4_992_ORF_1
0.8665
0.236443872
0.963923511
831
ORF sequence:
ATGCTGCCAGCACCAGACAGCAACACTGGCTCCAGCTCTGAAAACAAAGATGCTGACTTGGGCCGCTGTCTCACCGCAGATGGGCATTACCTGTACACTACCAACTCAGCCGGAAGAGGAGTGAGCAAGCTGGGCTCTGGACTGCATGGCACGCTCAGAGGGTTTGTGTACTGTCGCAATGAGGAGCTAGAGCCAGGGTGGGTGGCGTACGGCAATGGCCACCTACTCCATCGGCCTGTGTCTTTTGACAATAAACCTCACTCCCTTTTCCAGGTCATAGACCAGAACACCCTGCAGGTGTGCCAGACAGTGCCCATGCCCGCCAGCCCCCTTCCTGTGGGCAGCACCATGAGCACTGTGCACCTTTCCTCAGATGGCACTTACTTCTACTGGATCTGGTCCCCTGCCAGTTTAAATGAGAAAACCCCAAAGGGACACTCTGTCTTCATGGACATTTTTGAACTTGTGGTGGAAAATGGGGTATTTGTAGCCAACCCGCTTCAGGAACGCACAATCCTAATGAGAAAAGAGGGTGAGTCTGCTAAAAGCATTAATGAGATGCTCCTGAGCAGACTGTCTCGGTACAGAGCCTCTCCATCGGCGACTCTCGCGGCCCTGACTGGCTCCACCATCTCCAACACGCTGAAGGAGGATCAAGCAGCAAATACTAGCTGTGGCCTTCCTCTGAAAATGCTGCGGAAGACGCCCATGTACACCTGTGGCACGTACTTGGTGATGCTGGTCCCACCTCCAGGAGGGTCAGGCAGCTCTGCCACCCGCTCTCTCTTTGGTGGAACAAGTGGTCTGTCGTCTTTAAAGAGGGGTCACTGA
Peptide sequence:
MLPAPDSNTGSSSENKDADLGRCLTADGHYLYTTNSAGRGVSKLGSGLHGTLRGFVYCRNEELEPGWVAYGNGHLLHRPVSFDNKPHSLFQVIDQNTLQVCQTVPMPASPLPVGSTMSTVHLSSDGTYFYWIWSPASLNEKTPKGHSVFMDIFELVVENGVFVANPLQERTILMRKEGESAKSINEMLLSRLSRYRASPSATLAALTGSTISNTLKEDQAANTSCGLPLKMLRKTPMYTCGTYLVMLVPPPGGSGSSATRSLFGGTSGLSSLKRGH
IRESfinder result
IRESfinder score
0.501361379
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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