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mmu_circErn1_741
Basic information of circular RNA
PanCircBase ID:
mmu_circErn1_741
mm39_Chr. Position ID:
chr11|106298885|106302640|-
Gene name:
Ern1
Transcript:
ENSMUST00000001059.9
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
15,14,13,12
Exon/intron offsets:
0,830,1835,3563
Genomic length:
3755
Exon/intron sizes in nt:
19,09,12,68,192
Flanking exon/introns:
chr11:106298421-106298885|chr11:106302640-106305176
Splice length:
741
Other database IDs:
CIRCpedia: MMU_CIRCpedia_222570, circAtlas: mmu-Ern1_0007
Human Ortholog IDs:
Mature spliced Sequence:
GTTATCAACATAGTTGGCCAGACTTCAGACAACACACCGACCACCGTATCTCAGGATGTGGAGGAGAAGCTCGCTCGCGCCCCTGCCAAGCCTGAGGCCCCCGTGGACTCCATGCTCAAGGACATGGCTACCATTATCCTGAGCACCTTCCTGCTGGTTGGATGGGTGGCGTTCATCATCACTTACCCCCTGAGCGTGCATCAGCAGCGTCAGCTCCAGCACCAACAGTTCCAGAAGGAGCTGGAGAAGATTCAGCTCCTGCAGCAGCAGCAGCTGCCCTTCCACCCACACGGAGACCTTACCCAGGACCCTGAGTTCCTGGATTCATCTGGCCCCTTCTCAGAGAGCTCTGGCACCAGCAGCCCCAGCCCATCCCCCAGAGCCTCCAACCACTCCCTCCACCCCAGCAGCTCTGCCTCCAGGGCCGGCACCAGCCCCTCTCTGGAGCAGGATGATGAGGATGAGGAAACCAGAATGGTGATTGTTGGGAAAATTTCATTCTGCCCCAAGGATGTCCTGGGTCATGGAGCTGAGGGCACAATTGTATACAAAGGTATGTTTGACAACCGAGATGTGGCCGTGAAGAGGATCCTCCCTGAGTGTTTTAGCTTTGCCGACCGTGAGGTCCAGCTGCTTCGAGAATCAGACGAGCACCCAAATGTGATCCGCTACTTTTGCACAGAGAAGGACCGGCAGTTCCAGTACATTGCTATCGAGCTGTGTGCAGCCACCCTACAAGAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TTTGCACAGAGAAGGACCGG
60.25
CGAGCTTCTCCTCCACATCC
59.9
141
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AGACGAGCACCCAAATGTGA
59.6
GATACGGTGGTCGGTGTGTT
60.04
147
PCR template sequence:
ATCAGACGAGCACCCAAATGTGATCCGCTACTTTTGCACAGAGAAGGACCGGCAGTTCCAGTACATTGCTATCGAGCTGTGTGCAGCCACCCTACAAGAGGTTATCAACATAGTTGGCCAGACTTCAGACAACACACCGACCACCGTATCTCAGGATGTGGAGGAGAAGCTCGCTCGCGCCCCTGCCAAGCCTGAGGCCC
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-207(2), mmu-miR-140-5p(1), mmu-miR-709(1), mmu-miR-29b-1-5p(1), mmu-miR-182-5p(1), mmu-miR-370-3p(1), mmu-miR-697(1)
siRNAs for circular RNA silencing
Junction sequence
CACCCTACAAGAGGTTATCAACATAG
siRNA sets
GTTGATAACCTCTTGTAGG, CTATGTTGATAACCTCTTG, TATGTTGATAACCTCTTGT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCERN1_741_ORF_1
1.2908
0.449727506
0.999857356
1371
ORF sequence:
ATGCTCAAGGACATGGCTACCATTATCCTGAGCACCTTCCTGCTGGTTGGATGGGTGGCGTTCATCATCACTTACCCCCTGAGCGTGCATCAGCAGCGTCAGCTCCAGCACCAACAGTTCCAGAAGGAGCTGGAGAAGATTCAGCTCCTGCAGCAGCAGCAGCTGCCCTTCCACCCACACGGAGACCTTACCCAGGACCCTGAGTTCCTGGATTCATCTGGCCCCTTCTCAGAGAGCTCTGGCACCAGCAGCCCCAGCCCATCCCCCAGAGCCTCCAACCACTCCCTCCACCCCAGCAGCTCTGCCTCCAGGGCCGGCACCAGCCCCTCTCTGGAGCAGGATGATGAGGATGAGGAAACCAGAATGGTGATTGTTGGGAAAATTTCATTCTGCCCCAAGGATGTCCTGGGTCATGGAGCTGAGGGCACAATTGTATACAAAGGTATGTTTGACAACCGAGATGTGGCCGTGAAGAGGATCCTCCCTGAGTGTTTTAGCTTTGCCGACCGTGAGGTCCAGCTGCTTCGAGAATCAGACGAGCACCCAAATGTGATCCGCTACTTTTGCACAGAGAAGGACCGGCAGTTCCAGTACATTGCTATCGAGCTGTGTGCAGCCACCCTACAAGAGGTTATCAACATAGTTGGCCAGACTTCAGACAACACACCGACCACCGTATCTCAGGATGTGGAGGAGAAGCTCGCTCGCGCCCCTGCCAAGCCTGAGGCCCCCGTGGACTCCATGCTCAAGGACATGGCTACCATTATCCTGAGCACCTTCCTGCTGGTTGGATGGGTGGCGTTCATCATCACTTACCCCCTGAGCGTGCATCAGCAGCGTCAGCTCCAGCACCAACAGTTCCAGAAGGAGCTGGAGAAGATTCAGCTCCTGCAGCAGCAGCAGCTGCCCTTCCACCCACACGGAGACCTTACCCAGGACCCTGAGTTCCTGGATTCATCTGGCCCCTTCTCAGAGAGCTCTGGCACCAGCAGCCCCAGCCCATCCCCCAGAGCCTCCAACCACTCCCTCCACCCCAGCAGCTCTGCCTCCAGGGCCGGCACCAGCCCCTCTCTGGAGCAGGATGATGAGGATGAGGAAACCAGAATGGTGATTGTTGGGAAAATTTCATTCTGCCCCAAGGATGTCCTGGGTCATGGAGCTGAGGGCACAATTGTATACAAAGGTATGTTTGACAACCGAGATGTGGCCGTGAAGAGGATCCTCCCTGAGTGTTTTAGCTTTGCCGACCGTGAGGTCCAGCTGCTTCGAGAATCAGACGAGCACCCAAATGTGATCCGCTACTTTTGCACAGAGAAGGACCGGCAGTTCCAGTACATTGCTATCGAGCTGTGTGCAGCCACCCTACAAGAG
Peptide sequence:
MLKDMATIILSTFLLVGWVAFIITYPLSVHQQRQLQHQQFQKELEKIQLLQQQQLPFHPHGDLTQDPEFLDSSGPFSESSGTSSPSPSPRASNHSLHPSSSASRAGTSPSLEQDDEDEETRMVIVGKISFCPKDVLGHGAEGTIVYKGMFDNRDVAVKRILPECFSFADREVQLLRESDEHPNVIRYFCTEKDRQFQYIAIELCAATLQEVINIVGQTSDNTPTTVSQDVEEKLARAPAKPEAPVDSMLKDMATIILSTFLLVGWVAFIITYPLSVHQQRQLQHQQFQKELEKIQLLQQQQLPFHPHGDLTQDPEFLDSSGPFSESSGTSSPSPSPRASNHSLHPSSSASRAGTSPSLEQDDEDEETRMVIVGKISFCPKDVLGHGAEGTIVYKGMFDNRDVAVKRILPECFSFADREVQLLRESDEHPNVIRYFCTEKDRQFQYIAIELCAATLQE
IRESfinder result
IRESfinder score
0.577130287
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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