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mmu_circCcdc57_1096
Basic information of circular RNA
PanCircBase ID:
mmu_circCcdc57_1096
mm39_Chr. Position ID:
chr11|120769703|120788793|-
Gene name:
Ccdc57
Transcript:
ENSMUST00000056781.5
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
7
Exon/intron indexes:
14,13,12,11,10,9,8
Exon/intron offsets:
0,2937,6355,6972,15721,16379,18931
Genomic length:
19090
Exon/intron sizes in nt:
17,11,01,15,32,14,13,50,00,000
Flanking exon/introns:
chr11:120764625-120769703|chr11:120788793-120792700
Splice length:
1096
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
ATTTCGTGAAGATGCGGCAGCTCTGAAAGCTGCCTGGGACGCCCAGATCACGCAGATGTCCAAGGAGACTGTCTCCAAAGACTTTCAGATTCACACGCTGCAGGAAGAAGAGATGAAGCTCAAGGCACAGGTGGCCAGATTCCAACAGGACATAGACAGGTACAAGCAGCAGCTGTCCCTGGCAGTGGAGAGGGGACAGAGCCTGGAGCGTGAACAGGTACAGCTAGGCCTTGACTGGCAGCGTCGCTGCGATGATATTGAACGAGACCAGATCCAGAAATCGGAGACTTTGATCGAAGGGCTGACCAAGGCCAGGGATCAGGTCGCTGCTAAACTCCAGGAGACAGAGAAGGCACTGCGTCAGCAGGAGACTCTGCTGAAGGCTGTGTCACTGGAGCGAGACCAAGCTATGGAAACCCTACGTACACATGGGCTCCTTCCTGGACAGGAGGCACAGGTACCTCCTCAGCAGCATGAAGGAGAAATAAGGGCAGATTCTCCATCTACTGAGATCCAGAGGCTACAGGAACAGAATGCAGGTCTGCGGAACGCTGTTTCACAGATGAGGAGAGAGATGGAGATGCTGAGCGGTCATCTCCCCCCTGCCCAGCCAGAAGAGTGTTCAAATGCAGACCCTGATCCCAAGGCTGGAGGAGACTCCACCCCTCCAGATTATGTTCTGACCCTTGAAGCAGAAATGCAAAATCTAAAGCATAAACTTAAGGCATTGGAGGAACAACTACAAAGCACAGAAGAGCCAGTGAAGACGTCCGTGGCCACTGCTGATCCACACCATGGTGTCCACAGCTCTGCAGCAGCAGCTGACGCAGCTCTGGCAGACCAGACATCCACTGCATTAGCACTCAGAAAACTTGGAGACAGAGTGCACCTCTTGAACTTGCTGGTGACACAGCTCAAAAGGAAGCTGCGGCAGAAGCCCCGGGAGCTGGTCCCTGTCCAACACGAGGTCCCCAGTGAGGTGGACCAGGTGCACCTGGAGGTTTTGGAGCTGCAGAAGCAGGTGGCTGAGTTAAGGAAGCATCTCAAGGTGACACCCCAGGGAGAGCCTTCATCCAGGGAGCAGTTACAGAGACAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GGAGGTTTTGGAGCTGCAGA
60.25
TGGACATCTGCGTGATCTGG
59.82
162
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GGAGGTTTTGGAGCTGCAGA
60.25
CTCCTTGGACATCTGCGTGA
59.75
167
PCR template sequence:
GGAGGTTTTGGAGCTGCAGAAGCAGGTGGCTGAGTTAAGGAAGCATCTCAAGGTGACACCCCAGGGAGAGCCTTCATCCAGGGAGCAGTTACAGAGACAGATTTCGTGAAGATGCGGCAGCTCTGAAAGCTGCCTGGGACGCCCAGATCACGCAGATGTCCAAGGAGACTGTCTCCAAAGACTTTCAGATTCACACGCTG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
8
Interacting miRNAs (#binding sites)
mmu-miR-370-3p(2), mmu-miR-18a-5p(1), mmu-miR-143-3p(1), mmu-miR-324-3p(1), mmu-miR-680(1), mmu-miR-532-5p(1), mmu-miR-484(1), mmu-miR-3470b(1)
siRNAs for circular RNA silencing
Junction sequence
GTTACAGAGACAGATTTCGTGAAGAT
siRNA sets
CTTCACGAAATCTGTCTCT, ATCTTCACGAAATCTGTCT, TTCACGAAATCTGTCTCTG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCCCDC57_1096_ORF_1
1.2674
0.346813275
0.997665687
1050
ORF sequence:
ATGTCCAAGGAGACTGTCTCCAAAGACTTTCAGATTCACACGCTGCAGGAAGAAGAGATGAAGCTCAAGGCACAGGTGGCCAGATTCCAACAGGACATAGACAGGTACAAGCAGCAGCTGTCCCTGGCAGTGGAGAGGGGACAGAGCCTGGAGCGTGAACAGGTACAGCTAGGCCTTGACTGGCAGCGTCGCTGCGATGATATTGAACGAGACCAGATCCAGAAATCGGAGACTTTGATCGAAGGGCTGACCAAGGCCAGGGATCAGGTCGCTGCTAAACTCCAGGAGACAGAGAAGGCACTGCGTCAGCAGGAGACTCTGCTGAAGGCTGTGTCACTGGAGCGAGACCAAGCTATGGAAACCCTACGTACACATGGGCTCCTTCCTGGACAGGAGGCACAGGTACCTCCTCAGCAGCATGAAGGAGAAATAAGGGCAGATTCTCCATCTACTGAGATCCAGAGGCTACAGGAACAGAATGCAGGTCTGCGGAACGCTGTTTCACAGATGAGGAGAGAGATGGAGATGCTGAGCGGTCATCTCCCCCCTGCCCAGCCAGAAGAGTGTTCAAATGCAGACCCTGATCCCAAGGCTGGAGGAGACTCCACCCCTCCAGATTATGTTCTGACCCTTGAAGCAGAAATGCAAAATCTAAAGCATAAACTTAAGGCATTGGAGGAACAACTACAAAGCACAGAAGAGCCAGTGAAGACGTCCGTGGCCACTGCTGATCCACACCATGGTGTCCACAGCTCTGCAGCAGCAGCTGACGCAGCTCTGGCAGACCAGACATCCACTGCATTAGCACTCAGAAAACTTGGAGACAGAGTGCACCTCTTGAACTTGCTGGTGACACAGCTCAAAAGGAAGCTGCGGCAGAAGCCCCGGGAGCTGGTCCCTGTCCAACACGAGGTCCCCAGTGAGGTGGACCAGGTGCACCTGGAGGTTTTGGAGCTGCAGAAGCAGGTGGCTGAGTTAAGGAAGCATCTCAAGGTGACACCCCAGGGAGAGCCTTCATCCAGGGAGCAGTTACAGAGACAGATTTCGTGA
Peptide sequence:
MSKETVSKDFQIHTLQEEEMKLKAQVARFQQDIDRYKQQLSLAVERGQSLEREQVQLGLDWQRRCDDIERDQIQKSETLIEGLTKARDQVAAKLQETEKALRQQETLLKAVSLERDQAMETLRTHGLLPGQEAQVPPQQHEGEIRADSPSTEIQRLQEQNAGLRNAVSQMRREMEMLSGHLPPAQPEECSNADPDPKAGGDSTPPDYVLTLEAEMQNLKHKLKALEEQLQSTEEPVKTSVATADPHHGVHSSAAAADAALADQTSTALALRKLGDRVHLLNLLVTQLKRKLRQKPRELVPVQHEVPSEVDQVHLEVLELQKQVAELRKHLKVTPQGEPSSREQLQRQIS
IRESfinder result
IRESfinder score
0.391361507
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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