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mmu_circUimc1_968
Basic information of circular RNA
PanCircBase ID:
mmu_circUimc1_968
mm39_Chr. Position ID:
chr13|55223070|55225340|-
Gene name:
Uimc1
Transcript:
ENSMUST00000026997.12
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
6,5,4
Exon/intron offsets:
0,1044,2145
Genomic length:
2270
Exon/intron sizes in nt:
737,106,125
Flanking exon/introns:
chr13:55217620-55223070|chr13:55225340-55233422
Splice length:
968
Other database IDs:
CIRCpedia: MMU_CIRCpedia_23068, circAtlas: mmu-Uimc1_0017
CIRCpedia: HSA_CIRCpedia_51254
Human Ortholog IDs:
Mature spliced Sequence:
ACATGTCAGAAGAAGAACAATTTGCTTTGGCTCTCAAGATGAGTGAGCAGGAAGCTAGGGAGGTGAATAACCAGGAGGAGAAAGAAGAGGAGCTCTTGCGGAAAGCCATTGCTGAAAGCCTGAATAGTTGCTGGTCTTCTGCTGCTTCTGCTACCAGATCTCGACCTCTGGCTGCTGAACTATCTTCACATTCCCATCAAGAGAACACCAAAGACTCTGGGACCACTGAAGGCGTATGGCAGCTGGTACCTCCATCACTGTGTAAAGGCTCACATGTCAGTCAGGGAAACGAGGCTGAGCAAAGAAAGGAGCCCTGGGACCACAATGAAAACACTGAAGAGGAGCCGGTCTCTGGCAGCTCAGGAAGCTGGGACCAGTCAAGCCAGCCAGTGTTTGAGAATGAGAACGTTAAATGTTTTGACAGATGTACTGGCCACTTGGCTGAGCACACACAGTGTGGGAAGCCACAGGAAAGTACTGGGAGTGGTTATGCTTTTTCCAAAGCTGTCCAGGGTAGGGGGGACACGTCTAGGCAATGCCTTCCTATCCCAGCAGACACAAAAGGTCTCCAGGACACTGGGGGCACTGTGCACTACTACTGGGGTATTCCATTCTGCCCTGCTGGAGTAGATCCCAATCAATACACCAATGTCATTCTCTGCCAGTTAGAGGTTTATCAGAAGAGCCTGAAAATGGCTCAGAGACAGCTTGTTAAAAAAAGAGGGTTTGGGGAACCAGTGTTACCTAGACCTCCTTTTCTGATCCAGAATGAATGTGGCCAAGAAGATCAGACTAGTGACAAAAATGAAGGCATCTCAGAAGATATGGGAGATGAAGCCAAAGAGGAAAGGCAGGAATCTAGGGCATCTGTCTGGCACTCAGAAACCAAGGATTTTCAAAAAAGTCCAATTAAAAGCTTGAAACAGAAACTTTTGTTGGAGGAAGAACCAACAACCAGTCGTGGTCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGGCACTCAGAAACCAAGGA
59.16
TCACCTCCCTAGCTTCCTGC
60.98
162
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CTGGCACTCAGAAACCAAGGA
60.2
TCACCTCCCTAGCTTCCTGC
60.98
163
PCR template sequence:
TGTCTGGCACTCAGAAACCAAGGATTTTCAAAAAAGTCCAATTAAAAGCTTGAAACAGAAACTTTTGTTGGAGGAAGAACCAACAACCAGTCGTGGTCAGACATGTCAGAAGAAGAACAATTTGCTTTGGCTCTCAAGATGAGTGAGCAGGAAGCTAGGGAGGTGAATAACCAGGAGGAGAAAGAAGAGGAGCTCTTGCG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
22
Interacting miRNAs (#binding sites)
mmu-miR-9-5p(1), mmu-miR-200a-3p(1), mmu-miR-141-3p(1), mmu-miR-1a-3p(1), mmu-miR-199a-5p(1), mmu-miR-206-3p(1), mmu-miR-148b-3p(1), mmu-miR-7a-5p(1), mmu-miR-181b-5p(1), mmu-miR-214-3p(1), mmu-miR-128-3p(1), mmu-miR-22-3p(1), mmu-miR-199b-3p(1), mmu-miR-199a-3p(1), mmu-miR-362-5p(1), mmu-miR-383-5p(1), mmu-miR-29b-2-5p(1), mmu-miR-207(1), mmu-miR-335-3p(1), mmu-miR-3065-5p(1), mmu-miR-670-5p(1), mmu-miR-181d-5p(1)
siRNAs for circular RNA silencing
Junction sequence
CAGTCGTGGTCAGACATGTCAGAAGA
siRNA sets
TCTTCTGACATGTCTGACC, CTTCTGACATGTCTGACCA, TTCTGACATGTCTGACCAC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCUIMC1_968_ORF_1
0.8939
0.121926103
0.984427172
1008
ORF sequence:
ATGTCAGAAGAAGAACAATTTGCTTTGGCTCTCAAGATGAGTGAGCAGGAAGCTAGGGAGGTGAATAACCAGGAGGAGAAAGAAGAGGAGCTCTTGCGGAAAGCCATTGCTGAAAGCCTGAATAGTTGCTGGTCTTCTGCTGCTTCTGCTACCAGATCTCGACCTCTGGCTGCTGAACTATCTTCACATTCCCATCAAGAGAACACCAAAGACTCTGGGACCACTGAAGGCGTATGGCAGCTGGTACCTCCATCACTGTGTAAAGGCTCACATGTCAGTCAGGGAAACGAGGCTGAGCAAAGAAAGGAGCCCTGGGACCACAATGAAAACACTGAAGAGGAGCCGGTCTCTGGCAGCTCAGGAAGCTGGGACCAGTCAAGCCAGCCAGTGTTTGAGAATGAGAACGTTAAATGTTTTGACAGATGTACTGGCCACTTGGCTGAGCACACACAGTGTGGGAAGCCACAGGAAAGTACTGGGAGTGGTTATGCTTTTTCCAAAGCTGTCCAGGGTAGGGGGGACACGTCTAGGCAATGCCTTCCTATCCCAGCAGACACAAAAGGTCTCCAGGACACTGGGGGCACTGTGCACTACTACTGGGGTATTCCATTCTGCCCTGCTGGAGTAGATCCCAATCAATACACCAATGTCATTCTCTGCCAGTTAGAGGTTTATCAGAAGAGCCTGAAAATGGCTCAGAGACAGCTTGTTAAAAAAAGAGGGTTTGGGGAACCAGTGTTACCTAGACCTCCTTTTCTGATCCAGAATGAATGTGGCCAAGAAGATCAGACTAGTGACAAAAATGAAGGCATCTCAGAAGATATGGGAGATGAAGCCAAAGAGGAAAGGCAGGAATCTAGGGCATCTGTCTGGCACTCAGAAACCAAGGATTTTCAAAAAAGTCCAATTAAAAGCTTGAAACAGAAACTTTTGTTGGAGGAAGAACCAACAACCAGTCGTGGTCAGACATGTCAGAAGAAGAACAATTTGCTTTGGCTCTCAAGATGA
Peptide sequence:
MSEEEQFALALKMSEQEAREVNNQEEKEEELLRKAIAESLNSCWSSAASATRSRPLAAELSSHSHQENTKDSGTTEGVWQLVPPSLCKGSHVSQGNEAEQRKEPWDHNENTEEEPVSGSSGSWDQSSQPVFENENVKCFDRCTGHLAEHTQCGKPQESTGSGYAFSKAVQGRGDTSRQCLPIPADTKGLQDTGGTVHYYWGIPFCPAGVDPNQYTNVILCQLEVYQKSLKMAQRQLVKKRGFGEPVLPRPPFLIQNECGQEDQTSDKNEGISEDMGDEAKEERQESRASVWHSETKDFQKSPIKSLKQKLLLEEEPTTSRGQTCQKKNNLLWLSR
IRESfinder result
IRESfinder score
0.495397373
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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