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mmu_circHells_742
Basic information of circular RNA
PanCircBase ID:
mmu_circHells_742
mm39_Chr. Position ID:
chr19|38940278|38945761|+
Gene name:
Hells
Transcript:
ENSMUST00000025965.12
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
6
Exon/intron indexes:
12,13,14,15,16,17
Exon/intron offsets:
0,1708,2856,3079,5200,5363
Genomic length:
5483
Exon/intron sizes in nt:
9,71,62,14,01,39,84,120
Flanking exon/introns:
chr19:38938828-38940278|chr19:38945761-38947487
Splice length:
742
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
CTTTGAGTCTTGGTTTGATATCACTAGTCTTTCTGAAACTGCTGAAGATATTATAGCTAAAGAGAGAGAACAGAATGTTTTACATATGCTGCACCAGATTTTAACGCCTTTCCTACTGAGAAGACTGAAGTCTGATGTTGCTCTTGAAGTCCCCCCTAAGCGAGAAGTAGTTGTTTATGCACCACTTTGCAATAAACAAGAGATCTTCTATACAGCTATTGTGAACCGCACAATTGCAAACATGTTTGGATCCTGTGAGAAGGAAACAGTTGAGCTAAGTCCTACTGGAAGACCAAAACGACGAAGTAGAAAGTCAATAAATTACAGCGAACTAGATCAGTTCCCTAGTGAATTAGAAAAACTAATAAGTCAAATACAGCCAGAAGTAAACAGAGAGAGGACTGTTGTGGAAGGTAATATCCCTATAGAATCTGAAGTTAATCTGAAGCTGCGGAATATAATGATGCTACTTCGAAAGTGCTGTAATCACCCATATATGATTGAATATCCTATTGACCCTGTCACACAAGAATTTAAGATTGATGAAGAGTTGGTAACAAATTCTGGGAAGTTCTTAATTTTGGATCGAATGCTGCCCGAACTTAAAAAAAGAGGTCACAAGGTTCTGGTGTTTTCACAAATGACAAGCATGTTGGACATCTTGATGGATTATTGCCATCTTAGAAACTTCATCTTTAGCAGACTTGATGGGTCCATGTCTTATTCGGAAAGAGAAAAAAAT
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AGCAGACTTGATGGGTCCATG
60.06
TCTGGTGCAGCATATGTAAAACA
58.67
143
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AGCAGACTTGATGGGTCCAT
58.71
TCTGGTGCAGCATATGTAAAACA
58.67
143
PCR template sequence:
GACAAGCATGTTGGACATCTTGATGGATTATTGCCATCTTAGAAACTTCATCTTTAGCAGACTTGATGGGTCCATGTCTTATTCGGAAAGAGAAAAAAATCTTTGAGTCTTGGTTTGATATCACTAGTCTTTCTGAAACTGCTGAAGATATTATAGCTAAAGAGAGAGAACAGAATGTTTTACATATGCTGCACCAGATT
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-103-3p(2), mmu-miR-107-3p(2), mmu-miR-7b-5p(1), mmu-miR-335-5p(1), mmu-miR-7a-5p(1), mmu-miR-758-3p(1), mmu-miR-98-5p(1), mmu-miR-384-3p(1)
siRNAs for circular RNA silencing
Junction sequence
AAGAGAAAAAAATCTTTGAGTCTTGG
siRNA sets
ACTCAAAGATTTTTTTCTC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCHELLS_742_ORF_1
0.8503
0.039384917
0.888108664
777
ORF sequence:
ATGGGTCCATGTCTTATTCGGAAAGAGAAAAAAATCTTTGAGTCTTGGTTTGATATCACTAGTCTTTCTGAAACTGCTGAAGATATTATAGCTAAAGAGAGAGAACAGAATGTTTTACATATGCTGCACCAGATTTTAACGCCTTTCCTACTGAGAAGACTGAAGTCTGATGTTGCTCTTGAAGTCCCCCCTAAGCGAGAAGTAGTTGTTTATGCACCACTTTGCAATAAACAAGAGATCTTCTATACAGCTATTGTGAACCGCACAATTGCAAACATGTTTGGATCCTGTGAGAAGGAAACAGTTGAGCTAAGTCCTACTGGAAGACCAAAACGACGAAGTAGAAAGTCAATAAATTACAGCGAACTAGATCAGTTCCCTAGTGAATTAGAAAAACTAATAAGTCAAATACAGCCAGAAGTAAACAGAGAGAGGACTGTTGTGGAAGGTAATATCCCTATAGAATCTGAAGTTAATCTGAAGCTGCGGAATATAATGATGCTACTTCGAAAGTGCTGTAATCACCCATATATGATTGAATATCCTATTGACCCTGTCACACAAGAATTTAAGATTGATGAAGAGTTGGTAACAAATTCTGGGAAGTTCTTAATTTTGGATCGAATGCTGCCCGAACTTAAAAAAAGAGGTCACAAGGTTCTGGTGTTTTCACAAATGACAAGCATGTTGGACATCTTGATGGATTATTGCCATCTTAGAAACTTCATCTTTAGCAGACTTGATGGGTCCATGTCTTATTCGGAAAGAGAAAAAAAT
Peptide sequence:
MGPCLIRKEKKIFESWFDITSLSETAEDIIAKEREQNVLHMLHQILTPFLLRRLKSDVALEVPPKREVVVYAPLCNKQEIFYTAIVNRTIANMFGSCEKETVELSPTGRPKRRSRKSINYSELDQFPSELEKLISQIQPEVNRERTVVEGNIPIESEVNLKLRNIMMLLRKCCNHPYMIEYPIDPVTQEFKIDEELVTNSGKFLILDRMLPELKKRGHKVLVFSQMTSMLDILMDYCHLRNFIFSRLDGSMSYSEREKN
IRESfinder result
IRESfinder score
0.64293723
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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