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mmu_circPpip5k1_1186
Basic information of circular RNA
PanCircBase ID:
mmu_circPpip5k1_1186
mm39_Chr. Position ID:
chr2|121177744|121181494|-
Gene name:
Ppip5k1
Transcript:
ENSMUST00000110625.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
9
Exon/intron indexes:
10,9,8,7,6,5,4,3,2
Exon/intron offsets:
0,217,1203,1430,1910,2211,2683,3213,3653
Genomic length:
3750
Exon/intron sizes in nt:
122,162,102,155,86,91,196,175,97
Flanking exon/introns:
chr2:121174058-121177744|chr2:121181494-121185781
Splice length:
1186
Other database IDs:
circBase: mmu_circ_0009271, CIRCpedia: MMU_CIRCpedia_37664, circAtlas: mmu-Ppip5k1_0017
Human Ortholog IDs:
Mature spliced Sequence:
GAACCAACAGTAGCCTTCCTGGAAGAACTGCCTCTTCTCCTTGCTGCCTGGAGTTAACATTGTTTCCTGCTGGCAGAATCAGTGACATGCCAGCACTAGCGGGATGAGTGGGTGTTCCGGCGGGGATGTGGTCCTTGACGGCCAATGAGGACGAGAGCACTACGGCCCACTTCTTCCTTGGAGCTGGAGATGAGGGGTTGGGCACCTGTGGAATAGGCATGAGGACAGAAGAGAGTGACAGTGAACTCCTTGAGGACGAGGAGGATGAGGTGCCCCCAGAACCTCAAATTATTGTTGGCATCTGTGCCATGACCAAGAAATCCAAGTCCAAGCCAATGACCCAAATTCTAGAGCGACTCTGCAGATTTGACTACCTGACCGTTGTCATCCTGGGAGAAGATGTGATCCTAAATGAACCTGTGGAGAACTGGCCGTCCTGCCACTGCCTCATCTCTTTCCACTCCAAAGGCTTTCCTCTCGACAAAGCTGTGGCTTACTCCAAGCTTCGAAACCCCTTCCTTATCAATGACTTGGCCATGCAGTATTACATCCAAGATAGGAGGGAGGTGTACCGGATCCTACAGGAGGAAGGTATTGATCTGCCAAGATATGCTGTCCTCAACCGTGACCCCGCCTGTCCTGAGGAGTGCAGCCTGATAGAAGGTGAAGACCAGGTGGAGGTTAATGGAGCTGTTTTTCCCAAGCCCTTTGTGGAGAAGCCAGTGAGTGCAGAGGACCACAATGTTTACATCTACTACCCCAGCTCTGCTGGAGGAGGAAGCCAGCGCCTCTTCCGTAAGATCGGCAGCCGGAGCAGCGTGTACTCTCCTGAGAGCAGTGTGCGGAAGACAGGATCATACATCTATGAGGAGTTCATGCCGACAGATGGCACAGATGTTAAGGTGTACACAGTGGGGCCAGATTATGCCCATGCTGAAGCTAGAAAGTCTCCAGCTTTGGATGGGAAGGTTGAACGAGACAGTGAGGGGAAAGAGGTTCGATATCCAGTCATGTTGACCGCCATGGAAAAGCTGGTGGCCAGGAAGGTCTGCGTAGCTTTTAAGCAAACAGTTTGTGGATTTGACCTTCTTCGGGCCAATGGTCACTCTTTTGTGTGTGACGTCAATGGCTTTAGCTTTGTCAAGAACTCGATGAAGTACTATGATGACTGTGCCAAGATTCTGGG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGTGTGTGACGTCAATGGCT
60.18
CACTGATTCTGCCAGCAGGA
60.04
159
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGTGTGTGACGTCAATGGCT
60.18
TCACTGATTCTGCCAGCAGG
60.04
160
PCR template sequence:
TTCTTCGGGCCAATGGTCACTCTTTTGTGTGTGACGTCAATGGCTTTAGCTTTGTCAAGAACTCGATGAAGTACTATGATGACTGTGCCAAGATTCTGGGGAACCAACAGTAGCCTTCCTGGAAGAACTGCCTCTTCTCCTTGCTGCCTGGAGTTAACATTGTTTCCTGCTGGCAGAATCAGTGACATGCCAGCACTAGC
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-429-3p(1), mmu-miR-200b-3p(1), mmu-miR-200c-3p(1), mmu-miR-196a-5p(1), mmu-miR-709(1), mmu-miR-143-3p(1), mmu-miR-149-5p(1), mmu-miR-3061-5p(1)
siRNAs for circular RNA silencing
Junction sequence
CCAAGATTCTGGGGAACCAACAGTAG
siRNA sets
CTACTGTTGGTTCCCCAGA, TACTGTTGGTTCCCCAGAA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCPPIP5K1_1186_ORF_1
1.129
0.372707813
0.997706019
1074
ORF sequence:
ATGTGGTCCTTGACGGCCAATGAGGACGAGAGCACTACGGCCCACTTCTTCCTTGGAGCTGGAGATGAGGGGTTGGGCACCTGTGGAATAGGCATGAGGACAGAAGAGAGTGACAGTGAACTCCTTGAGGACGAGGAGGATGAGGTGCCCCCAGAACCTCAAATTATTGTTGGCATCTGTGCCATGACCAAGAAATCCAAGTCCAAGCCAATGACCCAAATTCTAGAGCGACTCTGCAGATTTGACTACCTGACCGTTGTCATCCTGGGAGAAGATGTGATCCTAAATGAACCTGTGGAGAACTGGCCGTCCTGCCACTGCCTCATCTCTTTCCACTCCAAAGGCTTTCCTCTCGACAAAGCTGTGGCTTACTCCAAGCTTCGAAACCCCTTCCTTATCAATGACTTGGCCATGCAGTATTACATCCAAGATAGGAGGGAGGTGTACCGGATCCTACAGGAGGAAGGTATTGATCTGCCAAGATATGCTGTCCTCAACCGTGACCCCGCCTGTCCTGAGGAGTGCAGCCTGATAGAAGGTGAAGACCAGGTGGAGGTTAATGGAGCTGTTTTTCCCAAGCCCTTTGTGGAGAAGCCAGTGAGTGCAGAGGACCACAATGTTTACATCTACTACCCCAGCTCTGCTGGAGGAGGAAGCCAGCGCCTCTTCCGTAAGATCGGCAGCCGGAGCAGCGTGTACTCTCCTGAGAGCAGTGTGCGGAAGACAGGATCATACATCTATGAGGAGTTCATGCCGACAGATGGCACAGATGTTAAGGTGTACACAGTGGGGCCAGATTATGCCCATGCTGAAGCTAGAAAGTCTCCAGCTTTGGATGGGAAGGTTGAACGAGACAGTGAGGGGAAAGAGGTTCGATATCCAGTCATGTTGACCGCCATGGAAAAGCTGGTGGCCAGGAAGGTCTGCGTAGCTTTTAAGCAAACAGTTTGTGGATTTGACCTTCTTCGGGCCAATGGTCACTCTTTTGTGTGTGACGTCAATGGCTTTAGCTTTGTCAAGAACTCGATGAAGTACTATGATGACTGTGCCAAGATTCTGGGGAACCAACAGTAG
Peptide sequence:
MWSLTANEDESTTAHFFLGAGDEGLGTCGIGMRTEESDSELLEDEEDEVPPEPQIIVGICAMTKKSKSKPMTQILERLCRFDYLTVVILGEDVILNEPVENWPSCHCLISFHSKGFPLDKAVAYSKLRNPFLINDLAMQYYIQDRREVYRILQEEGIDLPRYAVLNRDPACPEECSLIEGEDQVEVNGAVFPKPFVEKPVSAEDHNVYIYYPSSAGGGSQRLFRKIGSRSSVYSPESSVRKTGSYIYEEFMPTDGTDVKVYTVGPDYAHAEARKSPALDGKVERDSEGKEVRYPVMLTAMEKLVARKVCVAFKQTVCGFDLLRANGHSFVCDVNGFSFVKNSMKYYDDCAKILGNQQ
IRESfinder result
IRESfinder score
0.401689447
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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