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mmu_circSun1_1337
Basic information of circular RNA
PanCircBase ID:
mmu_circSun1_1337
mm39_Chr. Position ID:
chr5|139219225|139231199|+
Gene name:
Sun1
Transcript:
ENSMUST00000058716.14
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
11
Exon/intron indexes:
10,11,12,13,14,15,16,17,18,19,20
Exon/intron offsets:
0,430,1044,1216,2021,3178,4408,5357,7762,8472,11858
Genomic length:
11974
Exon/intron sizes in nt:
99,94,59,14,62,40,87,40,00,00,00,00,000
Flanking exon/introns:
chr5:139216992-139219225|chr5:139231199-139232447
Splice length:
1337
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTGACCTCTTGGTTCAAGCACTGCGAAGGACTAGAGCTGCCGGGTGGTCTGTGGCCGAGGCCGTGTGGTCGGTGCTCTGGCTGGCTGTCTCTGCTCCAGGGAAGGCAGCCTCGGGAACCTTCTGGTGGCTAGGGAGCGGCTGGTACCAATTTGTTACTTTGATTTCTTGGCTGAATGTCTTTCTTCTTACCAGGTGCCTTCGAAATATTTGCAAGGTTTTTGTCTTGCTCCTCCCACTCCTACTTTTACTAGGTGCTGGTGTCTCCCTGTGGGGCCAGGGAAACTTCTTCTCACTCCTACCAGTGCTGAACTGGACGGCCATGCAGCCAACACAGAGGGTGGACGATTCCAAGGGCATGCATAGACCTGGCCCTCTTCCCCCGAGCCCACCTCCAAAGGTTGATCACAAGGCTTCCCAGTGGCCTCAGGAGAGTGACATGGGGCAGAAGGTAGCTTCTTTGAGTGCGCAGTGCCACAACCATGATGAGAGACTTGCAGAGCTGACAGTCCTGCTTCAGAAACTACAGATACGGGTAGACCAAGTGGATGACGGCAGGGAAGGGCTGTCACTGTGGGTCAAGAATGTGGTTGGACAGCACCTGCAGGAGATGGGCACCATAGAACCACCTGATGCTAAGACTGACTTCATGACTTTCCACCATGACCATGAAGTGCGTCTCTCCAACTTGGAAGATGTTCTTAGAAAACTGACAGAAAAATCTGAGGCTATCCAGAAGGAGCTGGAAGAAACCAAGCTGAAAGCAGGCAGCAGGGATGAAGAGCAGCCCCTCCTTGACCGTGTGCAGCACCTAGAACTGGAACTGAACCTGTTGAAGTCACAGCTGTCAGACTGGCAGCATCTGAAGACCAGCTGTGAGCAGGCTGGGGCCCGCATCCAGGAGACTGTGCAGCTCATGTTCTCTGAGGATCAGCAGGGCGGTTCCCTCGAGTGGCTATTAGAGAAGCTTTCTTCTCGGTTCGTGAGCAAGGATGAGCTGCAGGTGCTCTTACATGACCTTGAGCTGAAACTGCTGCAGAATATCACACACCACATCACCGTGACAGGACAGGCCCCGACATCCGAGGCTATTGTGTCTGCCGTGAATCAGGCAGGGATTTCAGGAATCACAGAAGCGCAAGCACATATCATTGTGAACAATGCTCTGAAGCTGTACTCCCAAGACAAGACGGGGATGGTGGACTTTGCTCTGGAGTCTGGAGGTGGCAGCATCCTAAGCACTCGGTGCTCTGAGACCTATGAGACCAAGACGGCACTGCTGAGCCTGTTTGGGGTCCCACTGTGGTACTTCTCACAGTCACCTCGAGTGGTGATCCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ATGAGACCAAGACGGCACTG
60.04
CAGAGACAGCCAGCCAGAG
59.78
173
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ATGAGACCAAGACGGCACTG
60.04
CTGGAGCAGAGACAGCCAG
59.78
179
PCR template sequence:
CACTCGGTGCTCTGAGACCTATGAGACCAAGACGGCACTGCTGAGCCTGTTTGGGGTCCCACTGTGGTACTTCTCACAGTCACCTCGAGTGGTGATCCAGGTGACCTCTTGGTTCAAGCACTGCGAAGGACTAGAGCTGCCGGGTGGTCTGTGGCCGAGGCCGTGTGGTCGGTGCTCTGGCTGGCTGTCTCTGCTCCAGG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
9
Interacting miRNAs (#binding sites)
mmu-miR-124-3p(1), mmu-miR-223-3p(1), mmu-miR-185-5p(1), mmu-miR-128-3p(1), mmu-miR-362-5p(1), mmu-miR-29b-2-5p(1), mmu-miR-673-5p(1), mmu-miR-335-3p(1), mmu-miR-484(1)
siRNAs for circular RNA silencing
Junction sequence
AGTGGTGATCCAGGTGACCTCTTGGT
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCSUN1_1337_ORF_1
1.2217
0.31985482
0.998594065
1149
ORF sequence:
ATGCAGCCAACACAGAGGGTGGACGATTCCAAGGGCATGCATAGACCTGGCCCTCTTCCCCCGAGCCCACCTCCAAAGGTTGATCACAAGGCTTCCCAGTGGCCTCAGGAGAGTGACATGGGGCAGAAGGTAGCTTCTTTGAGTGCGCAGTGCCACAACCATGATGAGAGACTTGCAGAGCTGACAGTCCTGCTTCAGAAACTACAGATACGGGTAGACCAAGTGGATGACGGCAGGGAAGGGCTGTCACTGTGGGTCAAGAATGTGGTTGGACAGCACCTGCAGGAGATGGGCACCATAGAACCACCTGATGCTAAGACTGACTTCATGACTTTCCACCATGACCATGAAGTGCGTCTCTCCAACTTGGAAGATGTTCTTAGAAAACTGACAGAAAAATCTGAGGCTATCCAGAAGGAGCTGGAAGAAACCAAGCTGAAAGCAGGCAGCAGGGATGAAGAGCAGCCCCTCCTTGACCGTGTGCAGCACCTAGAACTGGAACTGAACCTGTTGAAGTCACAGCTGTCAGACTGGCAGCATCTGAAGACCAGCTGTGAGCAGGCTGGGGCCCGCATCCAGGAGACTGTGCAGCTCATGTTCTCTGAGGATCAGCAGGGCGGTTCCCTCGAGTGGCTATTAGAGAAGCTTTCTTCTCGGTTCGTGAGCAAGGATGAGCTGCAGGTGCTCTTACATGACCTTGAGCTGAAACTGCTGCAGAATATCACACACCACATCACCGTGACAGGACAGGCCCCGACATCCGAGGCTATTGTGTCTGCCGTGAATCAGGCAGGGATTTCAGGAATCACAGAAGCGCAAGCACATATCATTGTGAACAATGCTCTGAAGCTGTACTCCCAAGACAAGACGGGGATGGTGGACTTTGCTCTGGAGTCTGGAGGTGGCAGCATCCTAAGCACTCGGTGCTCTGAGACCTATGAGACCAAGACGGCACTGCTGAGCCTGTTTGGGGTCCCACTGTGGTACTTCTCACAGTCACCTCGAGTGGTGATCCAGGTGACCTCTTGGTTCAAGCACTGCGAAGGACTAGAGCTGCCGGGTGGTCTGTGGCCGAGGCCGTGTGGTCGGTGCTCTGGCTGGCTGTCTCTGCTCCAGGGAAGGCAGCCTCGGGAACCTTCTGGTGGCTAG
Peptide sequence:
MQPTQRVDDSKGMHRPGPLPPSPPPKVDHKASQWPQESDMGQKVASLSAQCHNHDERLAELTVLLQKLQIRVDQVDDGREGLSLWVKNVVGQHLQEMGTIEPPDAKTDFMTFHHDHEVRLSNLEDVLRKLTEKSEAIQKELEETKLKAGSRDEEQPLLDRVQHLELELNLLKSQLSDWQHLKTSCEQAGARIQETVQLMFSEDQQGGSLEWLLEKLSSRFVSKDELQVLLHDLELKLLQNITHHITVTGQAPTSEAIVSAVNQAGISGITEAQAHIIVNNALKLYSQDKTGMVDFALESGGGSILSTRCSETYETKTALLSLFGVPLWYFSQSPRVVIQVTSWFKHCEGLELPGGLWPRPCGRCSGWLSLLQGRQPREPSGG
IRESfinder result
IRESfinder score
0.515514611
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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