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mmu_circHip1_471
Basic information of circular RNA
PanCircBase ID:
mmu_circHip1_471
mm39_Chr. Position ID:
chr5|135449077|135455285|-
Gene name:
Hip1
Transcript:
ENSMUST00000060311.12
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
5
Exon/intron indexes:
27,26,25,24,23
Exon/intron offsets:
0,1897,4318,4641,6097
Genomic length:
6208
Exon/intron sizes in nt:
10,61,01,94,59,111
Flanking exon/introns:
chr5:135445947-135449077|chr5:135455285-135457353
Splice length:
471
Other database IDs:
CIRCpedia: MMU_CIRCpedia_8285
circBase: hsa_circ_0080707, circAtlas: hsa-HIP1_0026, CIRCpedia: HSA_CIRCpedia_58906
Human Ortholog IDs:
Mature spliced Sequence:
GAGCTGCTGCCCAGGGGCCTGGACATCAAGCAGGAAGAGCTGGGTGACCTGGTGGACAAGGAGATGGCAGCCACTTCAGCTGCCATTGAAGCTGCCACCACCCGGATAGAGGAAATTCTCAGTAAGTCCCGAGCAGGAGACACGGGAGTCAAGCTGGAGGTGAATGAGAGGATCCTGGGTTCCTGTACCAGCCTGATGCAGGCCATCAAGGTGCTCGTTGTGGCCTCCAAGGACCTCCAGAAGGAGATAGTGGAGAGTGGCAGGGGTACTGCATCCCCTAAAGAATTTTACGCCAAGAACTCTCGGTGGACGGAAGGGCTGATATCCGCCTCCAAAGCTGTTGGTTGGGGAGCTACCATCATGGTGGATGCTGCTGATCTTGTGGTCCAAGGCAAAGGGAAGTTCGAGGAGCTGATGGTGTGTTCACGCGAGATTGCTGCCAGTACTGCCCAGCTCGTGGCTGCATCCAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GGCAAAGGGAAGTTCGAGGA
59.96
GAAGTGGCTGCCATCTCCTT
60.03
158
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AGGCAAAGGGAAGTTCGAGG
59.96
GAAGTGGCTGCCATCTCCTT
60.03
159
PCR template sequence:
TGCTGATCTTGTGGTCCAAGGCAAAGGGAAGTTCGAGGAGCTGATGGTGTGTTCACGCGAGATTGCTGCCAGTACTGCCCAGCTCGTGGCTGCATCCAAGGAGCTGCTGCCCAGGGGCCTGGACATCAAGCAGGAAGAGCTGGGTGACCTGGTGGACAAGGAGATGGCAGCCACTTCAGCTGCCATTGAAGCTGCCACCA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
5
Interacting miRNAs (#binding sites)
mmu-miR-15a-5p(1), mmu-miR-211-5p(1), mmu-miR-204-5p(1), mmu-miR-15b-5p(1), mmu-miR-433-3p(1)
siRNAs for circular RNA silencing
Junction sequence
GGCTGCATCCAAGGAGCTGCTGCCCA
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCHIP1_471_ORF_1
1.2718
0.469048868
0.995325084
879
ORF sequence:
ATGGCAGCCACTTCAGCTGCCATTGAAGCTGCCACCACCCGGATAGAGGAAATTCTCAGTAAGTCCCGAGCAGGAGACACGGGAGTCAAGCTGGAGGTGAATGAGAGGATCCTGGGTTCCTGTACCAGCCTGATGCAGGCCATCAAGGTGCTCGTTGTGGCCTCCAAGGACCTCCAGAAGGAGATAGTGGAGAGTGGCAGGGGTACTGCATCCCCTAAAGAATTTTACGCCAAGAACTCTCGGTGGACGGAAGGGCTGATATCCGCCTCCAAAGCTGTTGGTTGGGGAGCTACCATCATGGTGGATGCTGCTGATCTTGTGGTCCAAGGCAAAGGGAAGTTCGAGGAGCTGATGGTGTGTTCACGCGAGATTGCTGCCAGTACTGCCCAGCTCGTGGCTGCATCCAAGGAGCTGCTGCCCAGGGGCCTGGACATCAAGCAGGAAGAGCTGGGTGACCTGGTGGACAAGGAGATGGCAGCCACTTCAGCTGCCATTGAAGCTGCCACCACCCGGATAGAGGAAATTCTCAGTAAGTCCCGAGCAGGAGACACGGGAGTCAAGCTGGAGGTGAATGAGAGGATCCTGGGTTCCTGTACCAGCCTGATGCAGGCCATCAAGGTGCTCGTTGTGGCCTCCAAGGACCTCCAGAAGGAGATAGTGGAGAGTGGCAGGGGTACTGCATCCCCTAAAGAATTTTACGCCAAGAACTCTCGGTGGACGGAAGGGCTGATATCCGCCTCCAAAGCTGTTGGTTGGGGAGCTACCATCATGGTGGATGCTGCTGATCTTGTGGTCCAAGGCAAAGGGAAGTTCGAGGAGCTGATGGTGTGTTCACGCGAGATTGCTGCCAGTACTGCCCAGCTCGTGGCTGCATCCAAG
Peptide sequence:
MAATSAAIEAATTRIEEILSKSRAGDTGVKLEVNERILGSCTSLMQAIKVLVVASKDLQKEIVESGRGTASPKEFYAKNSRWTEGLISASKAVGWGATIMVDAADLVVQGKGKFEELMVCSREIAASTAQLVAASKELLPRGLDIKQEELGDLVDKEMAATSAAIEAATTRIEEILSKSRAGDTGVKLEVNERILGSCTSLMQAIKVLVVASKDLQKEIVESGRGTASPKEFYAKNSRWTEGLISASKAVGWGATIMVDAADLVVQGKGKFEELMVCSREIAASTAQLVAASK
IRESfinder result
IRESfinder score
0.263112649
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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