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mmu_ciHnrnpul1_1051
Basic information of circular RNA
PanCircBase ID:
mmu_ciHnrnpul1_1051
mm39_Chr. Position ID:
chr7|25424297|25425348|-
Gene name:
Hnrnpul1
Transcript:
ENSMUST00000206832.2
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
12
Exon/intron offsets:
0
Genomic length:
1051
Exon/intron sizes in nt:
1051
Flanking exon/introns:
chr7:25424269-25425348
Splice length:
1051
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTGAGACATTTACCTTCTCCAGCCTTGTGTTTTGAGGCCAGGCTGTGGGAACCGGTTGATGGGAGTTACTACTCTGCAGCCTTGGGCCTTCCCACTGCCTGGTCTCCCAGCCGCACTGATGCCTTTGCCCATTTGCACATGGCAGTGCTCTCTTTGTTGGTCTTTCCCTATCTGACCGTACACTCTCTGAGGAATCTTGGGATCTATCTGTAGATCTCACAATGGCAAATATTAGAACTGCTTTTTGTTCAAAAACAAGTGAAGAAACAAGCTTAGAGCAATTAATTTGCCCATGATCACAGAGCTAAATTGAGCTGGGAGTCCAGTGAGCTAAAATCTAAATTCTTAATAAATGGTATGGTGTCTGAAGTAAAGTGTGATCATAAATTAACAAATGTGGGACCAGAGACCTCTCCCATCAGTTAAAAGCACTAGTTGCTCCTCCAGAGGGTTCAGGTTTGATTCTCAGCAGCCACACTGAGCTGCTTACAAGTGCCTATAACTCTAGCTCTACAGTATGCAATCCCTTCATACACATGCCAAATAAAAATATGTCTTTCAAACACATCTTTAAAACTGTGTATCAGACATGTTCTAGACCCTTCAGTGACCAAGGATGTTGTGACCTCATGACACCAAATTAACAACCTTCATGTAGATAAGCAACTCAGGAAGGGTCTCTGTGGAGCCTGCTTTTGGTTTGATGAGGGTACAGATTCAAGAAACAGTTGTACAATGGCTCAAGAGAGGCCACTTGGCCCAGCCTGTTGGACTATAATCTGACTAGCTTGCAGCTGTTTACTGCTGCTTAGCATTGTTCCTGAACACCTTTCTAATTTGTTGAACAGTTACATGGAGCTGAACACATCTAAGACATCTGTGCCTTGCCTGCTCACAGTCCACTGGAAGGCACAGACCTGTCTGCAGTGACTCTAGGTGTTGTGTCAGGGCAAGAACAAGGAAGTGTGCTGAGGGCCTGGGGGAGGCATGGATGCAGCACCTGCATTTGCTTGCTTTATTGACCTCAGTCTTGGTCACAGCCAGCCATGCT
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ACAAGGAAGTGTGCTGAGGG
59.89
AACTCCCATCAACCGGTTCC
59.96
163
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ACAAGGAAGTGTGCTGAGGG
59.89
AGCCTGGCCTCAAAACACAA
60.4
140
PCR template sequence:
AAGAACAAGGAAGTGTGCTGAGGGCCTGGGGGAGGCATGGATGCAGCACCTGCATTTGCTTGCTTTATTGACCTCAGTCTTGGTCACAGCCAGCCATGCTGTGAGACATTTACCTTCTCCAGCCTTGTGTTTTGAGGCCAGGCTGTGGGAACCGGTTGATGGGAGTTACTACTCTGCAGCCTTGGGCCTTCCCACTGCCT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
18
Interacting miRNAs (#binding sites)
mmu-miR-16-5p(1), mmu-miR-15a-5p(1), mmu-miR-7b-5p(1), mmu-miR-30e-5p(1), mmu-miR-19b-3p(1), mmu-miR-30a-5p(1), mmu-miR-19a-3p(1), mmu-miR-30d-5p(1), mmu-miR-503-5p(1), mmu-miR-411-3p(1), mmu-miR-370-3p(1), mmu-miR-541-5p(1), mmu-miR-362-5p(1), mmu-miR-484(1), mmu-miR-188-3p(1), mmu-miR-3065-5p(1), mmu-miR-697(1), mmu-miR-3061-5p(1)
siRNAs for circular RNA silencing
Junction sequence
AGCCAGCCATGCTGTGAGACATTTAC
siRNA sets
AAATGTCTCACAGCATGGC,TAAATGTCTCACAGCATGG,GTAAATGTCTCACAGCATG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIHNRNPUL1_1051_ORF_1
0.9135
-0.068437846
0.12974634
273
ORF sequence:
ATGCAGCACCTGCATTTGCTTGCTTTATTGACCTCAGTCTTGGTCACAGCCAGCCATGCTGTGAGACATTTACCTTCTCCAGCCTTGTGTTTTGAGGCCAGGCTGTGGGAACCGGTTGATGGGAGTTACTACTCTGCAGCCTTGGGCCTTCCCACTGCCTGGTCTCCCAGCCGCACTGATGCCTTTGCCCATTTGCACATGGCAGTGCTCTCTTTGTTGGTCTTTCCCTATCTGACCGTACACTCTCTGAGGAATCTTGGGATCTATCTGTAG
Peptide sequence:
MQHLHLLALLTSVLVTASHAVRHLPSPALCFEARLWEPVDGSYYSAALGLPTAWSPSRTDAFAHLHMAVLSLLVFPYLTVHSLRNLGIYL
IRESfinder result
IRESfinder score
0.762128513
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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