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mmu_ciHnf1a_556
Basic information of circular RNA
PanCircBase ID:
mmu_ciHnf1a_556
mm39_Chr. Position ID:
chr5|115090829|115091385|-
Gene name:
Hnf1a
Transcript:
ENSMUST00000031535.12
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
6
Exon/intron offsets:
0
Genomic length:
556
Exon/intron sizes in nt:
556
Flanking exon/introns:
chr5:115090829-115091385
Splice length:
556
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTAAGTGGGTGGCATGAGTGGGGCTCCTGTGCCTTGGGTGGAATCTGGCATCTGGAGCGAGCTACTGGGACTCATGGGTCTATCTATATGGCATCCACTTTCTGAGAGCCTGCAGCTAGGCACCCATGACGCCAGACAGTAACCAAACAAACCCACTAAGCATAGTGTGGAAATTTCCAGACATCAGTCTGAGACGATAGTGGAACTTTGCTCAGTGTTTAAGAAACAGGAAGATGCTAGAACAGGGGAGCAAAGCCCTAAGCCCAGGGCTATGCCACTACTACGGAACCCCCAGTTCTCTAGGGTACCTAGCTTGACAACCTCAACAGACTGACTCCCTTTCCCACCCGGCCAGATGAGGAGCTAAAGTCCTGCAGAATGACTTTTCAAGGCCACTTAAACGTGTGCCAGCCTCCTCTCCTTCCTCTTCTAACCCTCAGGCTGAGGAGGGGTAGTGTCCCTCAGAGGCCCTGGGCTGGGTCTAAGGAGACCCCGTGCATGCGGGGGGTGGGGTGGGGTGGGTGGGGCTCAGCTGACTCTTGCCTGTTCTGCCCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CTAAGGAGACCCCGTGCATG
60.18
CCAGTAGCTCGCTCCAGATG
59.97
143
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CTAAGGAGACCCCGTGCATG
60.18
ACCCATGAGTCCCAGTAGCT
59.96
154
PCR template sequence:
GTCCCTCAGAGGCCCTGGGCTGGGTCTAAGGAGACCCCGTGCATGCGGGGGGTGGGGTGGGGTGGGTGGGGCTCAGCTGACTCTTGCCTGTTCTGCCCAGGTAAGTGGGTGGCATGAGTGGGGCTCCTGTGCCTTGGGTGGAATCTGGCATCTGGAGCGAGCTACTGGGACTCATGGGTCTATCTATATGGCATCCACTT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
7
Interacting miRNAs (#binding sites)
mmu-miR-141-3p(1), mmu-miR-31-5p(1), mmu-miR-146a-5p(1), mmu-miR-27a-5p(1), mmu-miR-5101(1), mmu-miR-1199-5p(1), mmu-miR-146b-5p(1)
siRNAs for circular RNA silencing
Junction sequence
CTGTTCTGCCCAGGTAAGTGGGTGGC
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIHNF1A_556_ORF_1
0.7341
-0.158011735
0.041375678
195
ORF sequence:
ATGACTTTTCAAGGCCACTTAAACGTGTGCCAGCCTCCTCTCCTTCCTCTTCTAACCCTCAGGCTGAGGAGGGGTAGTGTCCCTCAGAGGCCCTGGGCTGGGTCTAAGGAGACCCCGTGCATGCGGGGGGTGGGGTGGGGTGGGTGGGGCTCAGCTGACTCTTGCCTGTTCTGCCCAGGTAAGTGGGTGGCATGA
Peptide sequence:
MTFQGHLNVCQPPLLPLLTLRLRRGSVPQRPWAGSKETPCMRGVGWGGWGSADSCLFCPGKWVA
IRESfinder result
IRESfinder score
0.453580354
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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