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mmu_circUtrn_1016
Basic information of circular RNA
PanCircBase ID:
mmu_circUtrn_1016
mm39_Chr. Position ID:
chr10|12351014|12413957|-
Gene name:
Utrn
Transcript:
ENSMUST00000076817.5
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
7
Exon/intron indexes:
57,56,55,54,53,52,51
Exon/intron offsets:
0,3142,5953,11115,26107,50067,62770
Genomic length:
62943
Exon/intron sizes in nt:
61,79,14,72,69,13,01,50,000
Flanking exon/introns:
chr10:12340986-12351014|chr10:12413957-12496934
Splice length:
1016
Other database IDs:
CIRCpedia: MMU_CIRCpedia_38973, circAtlas: mmu-Utrn_0011
circAtlas: hsa-UTRN_0012, CIRCpedia: HSA_CIRCpedia_371716
Human Ortholog IDs:
Mature spliced Sequence:
GACATCCAGGCAGAAATTGATGCCCACAATGACATATTTAAAAGCATCGATGGAAACCGGCAGAAGATGGTGAAAGCTCTGGGGAATTCTGAGGAAGCAACAATGCTTCAGCATCGACTGGATGACATGAACCAAAGATGGAATGATTTGAAGGCAAAATCTGCTAGCATCAGGGCCCATTTGGAGGCCAGTGCTGAGAAATGGAACCGGTTGCTGGCATCGCTGGAAGAGCTGATCAAATGGCTCAATATGAAAGATGAGGAGCTTAAGAAGCAGATGCCCATTGGAGGGGACGTCCCTGCCTTACAGCTCCAGTATGACCACTGCAAGGTGCTGAGACGTGAGCTAAAGGAGAAAGAGTATTCTGTGCTGAACGCCGTAGATCAAGCTCGAGTTTTTCTGGCTGATCAGCCAATAGAGGCCCCCGAAGAACCAAGAAGAAACCCACAATCAAAGACAGAGTTGACTCCTGAGGAGAGAGCCCAGAAGATCGCCAAAGCCATGCGCAAGCAGTCTTCTGAAGTCCGAGAGAAGTGGGAAAATCTAAATGCTGTCACTAGCAACTGGCAAAAGCAAGTAGGGAAGGCGTTAGAGAAACTCCGAGACCTGCAGGGAGCTATGGACGACCTGGACGCAGACATGAAGGAGGTGGAGGCTGTGCGGAATGGCTGGAAGCCCGTGGGAGACCTGCTTATAGACTCCCTGCAGGATCACATCGAGAAAACCCTGGCGTTTAGAGAAGAAATTGCACCAATCAACTTAAAAGTAAAAACAATGAATGACCTGTCCAGTCAGCTGTCTCCACTTGACTTGCATCCATCTCTAAAGATGTCTCGCCAGCTGGATGACCTTAATATGCGATGGAAACTTCTACAGGTTTCCGTGGACGATCGCCTTAAGCAGCTCCAGGAAGCCCACAGAGATTTTGGGCCATCTTCTCAACACTTTCTGTCCACTTCAGTCCAGCTGCCGTGGCAGAGATCCATTTCACATAATAAAGTGCCCTATTACATCAA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGTCCACTTCAGTCCAGCTG
59.61
TCACCATCTTCTGCCGGTTT
59.6
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGTCCACTTCAGTCCAGCTG
59.61
TTCACCATCTTCTGCCGGTT
59.6
141
PCR template sequence:
ACAGAGATTTTGGGCCATCTTCTCAACACTTTCTGTCCACTTCAGTCCAGCTGCCGTGGCAGAGATCCATTTCACATAATAAAGTGCCCTATTACATCAAGACATCCAGGCAGAAATTGATGCCCACAATGACATATTTAAAAGCATCGATGGAAACCGGCAGAAGATGGTGAAAGCTCTGGGGAATTCTGAGGAAGCAA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
3
Interacting miRNAs (#binding sites)
mmu-miR-680(1), mmu-miR-3105-3p(1), mmu-miR-193b-3p(1)
siRNAs for circular RNA silencing
Junction sequence
CCTATTACATCAAGACATCCAGGCAG
siRNA sets
GATGTCTTGATGTAATAGG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCUTRN_1016_ORF_1
1.0821
0.289262811
0.994967002
1023
ORF sequence:
ATGGTGAAAGCTCTGGGGAATTCTGAGGAAGCAACAATGCTTCAGCATCGACTGGATGACATGAACCAAAGATGGAATGATTTGAAGGCAAAATCTGCTAGCATCAGGGCCCATTTGGAGGCCAGTGCTGAGAAATGGAACCGGTTGCTGGCATCGCTGGAAGAGCTGATCAAATGGCTCAATATGAAAGATGAGGAGCTTAAGAAGCAGATGCCCATTGGAGGGGACGTCCCTGCCTTACAGCTCCAGTATGACCACTGCAAGGTGCTGAGACGTGAGCTAAAGGAGAAAGAGTATTCTGTGCTGAACGCCGTAGATCAAGCTCGAGTTTTTCTGGCTGATCAGCCAATAGAGGCCCCCGAAGAACCAAGAAGAAACCCACAATCAAAGACAGAGTTGACTCCTGAGGAGAGAGCCCAGAAGATCGCCAAAGCCATGCGCAAGCAGTCTTCTGAAGTCCGAGAGAAGTGGGAAAATCTAAATGCTGTCACTAGCAACTGGCAAAAGCAAGTAGGGAAGGCGTTAGAGAAACTCCGAGACCTGCAGGGAGCTATGGACGACCTGGACGCAGACATGAAGGAGGTGGAGGCTGTGCGGAATGGCTGGAAGCCCGTGGGAGACCTGCTTATAGACTCCCTGCAGGATCACATCGAGAAAACCCTGGCGTTTAGAGAAGAAATTGCACCAATCAACTTAAAAGTAAAAACAATGAATGACCTGTCCAGTCAGCTGTCTCCACTTGACTTGCATCCATCTCTAAAGATGTCTCGCCAGCTGGATGACCTTAATATGCGATGGAAACTTCTACAGGTTTCCGTGGACGATCGCCTTAAGCAGCTCCAGGAAGCCCACAGAGATTTTGGGCCATCTTCTCAACACTTTCTGTCCACTTCAGTCCAGCTGCCGTGGCAGAGATCCATTTCACATAATAAAGTGCCCTATTACATCAAGACATCCAGGCAGAAATTGATGCCCACAATGACATATTTAAAAGCATCGATGGAAACCGGCAGAAGATGGTGA
Peptide sequence:
MVKALGNSEEATMLQHRLDDMNQRWNDLKAKSASIRAHLEASAEKWNRLLASLEELIKWLNMKDEELKKQMPIGGDVPALQLQYDHCKVLRRELKEKEYSVLNAVDQARVFLADQPIEAPEEPRRNPQSKTELTPEERAQKIAKAMRKQSSEVREKWENLNAVTSNWQKQVGKALEKLRDLQGAMDDLDADMKEVEAVRNGWKPVGDLLIDSLQDHIEKTLAFREEIAPINLKVKTMNDLSSQLSPLDLHPSLKMSRQLDDLNMRWKLLQVSVDDRLKQLQEAHRDFGPSSQHFLSTSVQLPWQRSISHNKVPYYIKTSRQKLMPTMTYLKASMETGRRW
IRESfinder result
IRESfinder score
0.267067123
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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