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mmu_circUsp16_1391
Basic information of circular RNA
PanCircBase ID:
mmu_circUsp16_1391
mm39_Chr. Position ID:
chr16|87255528|87273775|+
Gene name:
Usp16
Transcript:
ENSMUST00000026710.12
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
12
Exon/intron indexes:
2,3,4,5,6,7,8,9,10,11,12,13
Exon/intron offsets:
0,3324,6094,7612,11034,11713,13071,13440,14466,15941,16776,18073
Genomic length:
18247
Exon/intron sizes in nt:
10,21,76,10,41,04,18,80,00,00,00,00,00,00,000
Flanking exon/introns:
chr16:87251990-87255528|chr16:87273775-87276013
Splice length:
1391
Other database IDs:
circAtlas: mmu-Usp16_0003
circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_174845
Human Ortholog IDs:
Mature spliced Sequence:
ATTGTAACTTTGTGTCAGCGTGCAGTCCATAAAGTGCCAGCATGGGGAAGAAACGGACCAAGGGGAGAAGTGCTCCAGACACGGTGGCCTCAGAGTCTGCAGAACCAGTGTGCAGACACCTTAGAAAAGGGTTGGAACAAGGTAATTTGAAAAAAGCTTTAGTAAATGTGGAGTGGAATATCTGCCAAGACTGTAAGACTGACAATAAAGTGAAAGATAAACCTGAGGAGGAAGCAGAAGACCCTTCGGTTTGGCTCTGTCTTAAATGTGGCCATCAGGGCTGTGGCAGAGATTCTCAGGAGCAGCATGCCTTGAAGCACTACACGACACCGAGATCCGAGCCTCACTACCTGGTGCTCAGTCTGGACAACTGGAGCGTCTGGTGCTACAAGTGTGACGAGGAAGTCAAGTACTGTAGCTCAAACCGATTGGGCCAAGTGGTTGATTATGTTAGAAAACAAGCTGGCGTAAGAACTTCAAAACCAGCAGAGAAAAATAATGGACACATTGAGCTCGAAAATAAAAAATTGGAGAAAGAGAGTAAAAATGAACAAGAGAGAGAGAAATCGGAAAACCTGGCTAAAGAAACTATTCCCATGGACTCTGCTTCCCAGATAACTGTGAAAGGACTCAGTAATTTGGGGAATACTTGTTTCTTCAATGCAGTTATGCAGAACTTGTCACAAACGCCAGTGCTTAGAGAACTACTAAAAGAAGTGAAGATGTCTGGAACGATTGTAAAAATAGAGCCACCTGATCTGGCACTAACAGAACCTTTAGAAGTAAACCTCGAGCCTCCAGGTCCTCTTACTTTAGCCATGAGCCAGTTTCTCAGTGAGATGCAAGAGAACAAAAAGCGAGTTGTGACACCTAAAGAGCTCTTTTCTCAGGTCTGTAAAAAAGCAACACGTTTTAAAGGGTACCAGCAACAAGACAGCCAGGAGCTGCTTCGCTACCTACTGGATGGGATGAGAGCGGAAGAACACCAAAGAGTGAGTAAAGGAATTCTTAAAGCATTTGGTAATTCTACTGAAAAATTGGATGAAGAAGTAAAAAATAAAGTTAAAGATTATGAAAAGAAAAAGGCAATCCCGAGTTTTGTGGACCGCATCTTTGGTGGCGAGCTGACTAGTACGATCATGTGTGATGAATGCAGGACTGTCTCCTTAGTGCATGAATCGTTCCTTGATTTGTCTCTTCCAGTTTTAGATGATCAGAGTGGTAAGAAAAGTATAAATGATAAAAATGTGAAAATGACAATGGAGGAAGAAGATAAAGACAGTGAGGAAGAGAAAGATGACAGCTACATGAAATCAAGGAGCGATCTTCCGTCAGGGACAAGCAAGCACCTACAGAAAAAGGCAAAGAAGCAGGCCAAAAAGCAGGCCAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CAAGGAGCGATCTTCCGTCA
59.83
GAGCACTTCTCCCCTTGGTC
60.04
152
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CAGGGACAAGCAAGCACCTA
59.96
CCGTGTCTGGAGCACTTCTC
60.39
143
PCR template sequence:
GAAAGATGACAGCTACATGAAATCAAGGAGCGATCTTCCGTCAGGGACAAGCAAGCACCTACAGAAAAAGGCAAAGAAGCAGGCCAAAAAGCAGGCCAAGATTGTAACTTTGTGTCAGCGTGCAGTCCATAAAGTGCCAGCATGGGGAAGAAACGGACCAAGGGGAGAAGTGCTCCAGACACGGTGGCCTCAGAGTCTGC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
10
Interacting miRNAs (#binding sites)
mmu-miR-9-5p(1), mmu-miR-101a-3p(1), mmu-miR-33-5p(1), mmu-miR-217-5p(1), mmu-miR-101b-3p(1), mmu-miR-139-5p(1), mmu-miR-149-5p(1), mmu-miR-136-5p(1), mmu-miR-207(1), mmu-miR-1904(1)
siRNAs for circular RNA silencing
Junction sequence
AAAGCAGGCCAAGATTGTAACTTTGT
siRNA sets
ACAAAGTTACAATCTTGGC, AGTTACAATCTTGGCCTGC, AAGTTACAATCTTGGCCTG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCUSP16_1391_ORF_1
0.8828
0.135759406
0.999553273
1500
ORF sequence:
ATGGGGAAGAAACGGACCAAGGGGAGAAGTGCTCCAGACACGGTGGCCTCAGAGTCTGCAGAACCAGTGTGCAGACACCTTAGAAAAGGGTTGGAACAAGGTAATTTGAAAAAAGCTTTAGTAAATGTGGAGTGGAATATCTGCCAAGACTGTAAGACTGACAATAAAGTGAAAGATAAACCTGAGGAGGAAGCAGAAGACCCTTCGGTTTGGCTCTGTCTTAAATGTGGCCATCAGGGCTGTGGCAGAGATTCTCAGGAGCAGCATGCCTTGAAGCACTACACGACACCGAGATCCGAGCCTCACTACCTGGTGCTCAGTCTGGACAACTGGAGCGTCTGGTGCTACAAGTGTGACGAGGAAGTCAAGTACTGTAGCTCAAACCGATTGGGCCAAGTGGTTGATTATGTTAGAAAACAAGCTGGCGTAAGAACTTCAAAACCAGCAGAGAAAAATAATGGACACATTGAGCTCGAAAATAAAAAATTGGAGAAAGAGAGTAAAAATGAACAAGAGAGAGAGAAATCGGAAAACCTGGCTAAAGAAACTATTCCCATGGACTCTGCTTCCCAGATAACTGTGAAAGGACTCAGTAATTTGGGGAATACTTGTTTCTTCAATGCAGTTATGCAGAACTTGTCACAAACGCCAGTGCTTAGAGAACTACTAAAAGAAGTGAAGATGTCTGGAACGATTGTAAAAATAGAGCCACCTGATCTGGCACTAACAGAACCTTTAGAAGTAAACCTCGAGCCTCCAGGTCCTCTTACTTTAGCCATGAGCCAGTTTCTCAGTGAGATGCAAGAGAACAAAAAGCGAGTTGTGACACCTAAAGAGCTCTTTTCTCAGGTCTGTAAAAAAGCAACACGTTTTAAAGGGTACCAGCAACAAGACAGCCAGGAGCTGCTTCGCTACCTACTGGATGGGATGAGAGCGGAAGAACACCAAAGAGTGAGTAAAGGAATTCTTAAAGCATTTGGTAATTCTACTGAAAAATTGGATGAAGAAGTAAAAAATAAAGTTAAAGATTATGAAAAGAAAAAGGCAATCCCGAGTTTTGTGGACCGCATCTTTGGTGGCGAGCTGACTAGTACGATCATGTGTGATGAATGCAGGACTGTCTCCTTAGTGCATGAATCGTTCCTTGATTTGTCTCTTCCAGTTTTAGATGATCAGAGTGGTAAGAAAAGTATAAATGATAAAAATGTGAAAATGACAATGGAGGAAGAAGATAAAGACAGTGAGGAAGAGAAAGATGACAGCTACATGAAATCAAGGAGCGATCTTCCGTCAGGGACAAGCAAGCACCTACAGAAAAAGGCAAAGAAGCAGGCCAAAAAGCAGGCCAAGATTGTAACTTTGTGTCAGCGTGCAGTCCATAAAGTGCCAGCATGGGGAAGAAACGGACCAAGGGGAGAAGTGCTCCAGACACGGTGGCCTCAGAGTCTGCAGAACCAGTGTGCAGACACCTTAGAAAAGGGTTGGAACAAGGTAATTTGA
Peptide sequence:
MGKKRTKGRSAPDTVASESAEPVCRHLRKGLEQGNLKKALVNVEWNICQDCKTDNKVKDKPEEEAEDPSVWLCLKCGHQGCGRDSQEQHALKHYTTPRSEPHYLVLSLDNWSVWCYKCDEEVKYCSSNRLGQVVDYVRKQAGVRTSKPAEKNNGHIELENKKLEKESKNEQEREKSENLAKETIPMDSASQITVKGLSNLGNTCFFNAVMQNLSQTPVLRELLKEVKMSGTIVKIEPPDLALTEPLEVNLEPPGPLTLAMSQFLSEMQENKKRVVTPKELFSQVCKKATRFKGYQQQDSQELLRYLLDGMRAEEHQRVSKGILKAFGNSTEKLDEEVKNKVKDYEKKKAIPSFVDRIFGGELTSTIMCDECRTVSLVHESFLDLSLPVLDDQSGKKSINDKNVKMTMEEEDKDSEEEKDDSYMKSRSDLPSGTSKHLQKKAKKQAKKQAKIVTLCQRAVHKVPAWGRNGPRGEVLQTRWPQSLQNQCADTLEKGWNKVI
IRESfinder result
IRESfinder score
0.493633832
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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