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mmu_circPrkg1_1303
Basic information of circular RNA
PanCircBase ID:
mmu_circPrkg1_1303
mm39_Chr. Position ID:
chr19|30556009|30970562|-
Gene name:
Prkg1
Transcript:
ENSMUST00000065067.14
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
13
Exon/intron indexes:
16,15,14,13,12,11,10,9,8,7,6,5,4
Exon/intron offsets:
0,148,6529,7656,14238,16332,46072,118273,145550,202685,208284,316022,414447
Genomic length:
414553
Exon/intron sizes in nt:
63,12,31,64,14,29,01,40,00,00,00,00,00,00,000
Flanking exon/introns:
chr19:30549078-30556009|chr19:30970562-31279685
Splice length:
1303
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
CTCTTGTAAATGTGAAACTCTGGGCCATCGATCGACAATGTTTTCAAACAATAATGATGAGGACAGGACTCATCAAGCATACCGAGTACATGGAATTTTTAAAAAGTGTTCCAACATTCCAGAGCCTTCCTGATGAAATCCTCAGCAAGCTGGCTGATGTCCTCGAAGAGACCCACTATGAAAATGGAGAATATATCATCAGGCAGGGTGCAAGAGGAGACACCTTCTTCATCATCAGTAAAGGGCAGGTGAATGTTACTCGAGAAGACTCACCAAGTGAAGACCCAGTCTTCCTTAGAACTTTAGGGAAGGGAGATTGGTTTGGAGAGAAAGCGTTGCAGGGGGAGGATGTGAGAACAGCAAATGTTATTGCCGCAGAAGCTGTCACCTGCCTTGTGATTGACAGAGACTCTTTCAAGCATTTGATTGGAGGACTGGACGATGTTTCTAACAAAGCATATGAGGACGCAGAAGCAAAAGCAAAATATGAAGCCGAAGCTGCCTTCTTCGCCAACCTGAAGCTGTCTGATTTCAACATCATTGACACCCTTGGAGTTGGAGGTTTCGGACGAGTAGAGCTGGTCCAGTTGAAAAGTGAAGAATCCAAAACATTTGCAATGAAGATCCTCAAGAAACGCCACATTGTGGACACCAGACAGCAGGAGCACATCCGCTCAGAGAAGCAGATCATGCAGGGGGCTCATTCTGACTTCATTGTGAGGCTGTACAGGACATTTAAAGACAGCAAATACTTGTATATGTTGATGGAAGCGTGCCTGGGTGGAGAGCTCTGGACTATTCTCAGGGATAGGGGTTCGTTTGAAGACTCAACAACCAGGTTTTACACTGCATGTGTGGTAGAAGCATTCGCCTATCTGCATTCCAAAGGAATCATTTACAGGGACCTCAAGCCGGAGAATCTCATCCTAGATCATCGAGGCTATGCCAAACTGGTTGACTTTGGCTTTGCAAAGAAAATAGGATTTGGAAAGAAAACATGGACTTTTTGTGGGACTCCAGAATATGTAGCCCCAGAGATCATCCTGAACAAAGGCCATGACATTTCAGCTGACTACTGGTCACTAGGAATTCTGATGTATGAGCTTCTGACTGGCAGCCCACCTTTCTCAGGCCCAGATCCAATGAAAACCTACAATATCATACTGCGGGGGATTGACATGATAGAATTTCCAAAGAAGATTGCAAAAAATGCTGCTAATTTAATTAAAAAACTATGCAGGGACAACCCATCAGAGAGGTTAGGAAATTTGAAAAACGGAGTCAAAGACATTCAGAAACACAA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GGACAACCCATCAGAGAGGT
58.72
GCTTGATGAGTCCTGTCCTCA
59.45
141
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GGACAACCCATCAGAGAGGT
58.72
TGCTTGATGAGTCCTGTCCTC
59.45
142
PCR template sequence:
CAAAAAATGCTGCTAATTTAATTAAAAAACTATGCAGGGACAACCCATCAGAGAGGTTAGGAAATTTGAAAAACGGAGTCAAAGACATTCAGAAACACAACTCTTGTAAATGTGAAACTCTGGGCCATCGATCGACAATGTTTTCAAACAATAATGATGAGGACAGGACTCATCAAGCATACCGAGTACATGGAATTTTT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
19
Interacting miRNAs (#binding sites)
mmu-miR-1198-5p(2), mmu-miR-23b-3p(1), mmu-miR-7b-5p(1), mmu-miR-221-3p(1), mmu-miR-322-5p(1), mmu-miR-7a-5p(1), mmu-miR-203-3p(1), mmu-miR-23a-3p(1), mmu-miR-181b-5p(1), mmu-miR-381-3p(1), mmu-miR-136-5p(1), mmu-miR-351-5p(1), mmu-miR-199b-3p(1), mmu-miR-199a-3p(1), mmu-miR-129-5p(1), mmu-miR-335-3p(1), mmu-miR-670-5p(1), mmu-miR-697(1), mmu-miR-1904(1)
siRNAs for circular RNA silencing
Junction sequence
TTCAGAAACACAACTCTTGTAAATGT
siRNA sets
TTTACAAGAGTTGTGTTTC, ACATTTACAAGAGTTGTGT, ACAAGAGTTGTGTTTCTGA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCPRKG1_1303_ORF_1
0.9965
0.190656701
0.999330839
1383
ORF sequence:
ATGATGAGGACAGGACTCATCAAGCATACCGAGTACATGGAATTTTTAAAAAGTGTTCCAACATTCCAGAGCCTTCCTGATGAAATCCTCAGCAAGCTGGCTGATGTCCTCGAAGAGACCCACTATGAAAATGGAGAATATATCATCAGGCAGGGTGCAAGAGGAGACACCTTCTTCATCATCAGTAAAGGGCAGGTGAATGTTACTCGAGAAGACTCACCAAGTGAAGACCCAGTCTTCCTTAGAACTTTAGGGAAGGGAGATTGGTTTGGAGAGAAAGCGTTGCAGGGGGAGGATGTGAGAACAGCAAATGTTATTGCCGCAGAAGCTGTCACCTGCCTTGTGATTGACAGAGACTCTTTCAAGCATTTGATTGGAGGACTGGACGATGTTTCTAACAAAGCATATGAGGACGCAGAAGCAAAAGCAAAATATGAAGCCGAAGCTGCCTTCTTCGCCAACCTGAAGCTGTCTGATTTCAACATCATTGACACCCTTGGAGTTGGAGGTTTCGGACGAGTAGAGCTGGTCCAGTTGAAAAGTGAAGAATCCAAAACATTTGCAATGAAGATCCTCAAGAAACGCCACATTGTGGACACCAGACAGCAGGAGCACATCCGCTCAGAGAAGCAGATCATGCAGGGGGCTCATTCTGACTTCATTGTGAGGCTGTACAGGACATTTAAAGACAGCAAATACTTGTATATGTTGATGGAAGCGTGCCTGGGTGGAGAGCTCTGGACTATTCTCAGGGATAGGGGTTCGTTTGAAGACTCAACAACCAGGTTTTACACTGCATGTGTGGTAGAAGCATTCGCCTATCTGCATTCCAAAGGAATCATTTACAGGGACCTCAAGCCGGAGAATCTCATCCTAGATCATCGAGGCTATGCCAAACTGGTTGACTTTGGCTTTGCAAAGAAAATAGGATTTGGAAAGAAAACATGGACTTTTTGTGGGACTCCAGAATATGTAGCCCCAGAGATCATCCTGAACAAAGGCCATGACATTTCAGCTGACTACTGGTCACTAGGAATTCTGATGTATGAGCTTCTGACTGGCAGCCCACCTTTCTCAGGCCCAGATCCAATGAAAACCTACAATATCATACTGCGGGGGATTGACATGATAGAATTTCCAAAGAAGATTGCAAAAAATGCTGCTAATTTAATTAAAAAACTATGCAGGGACAACCCATCAGAGAGGTTAGGAAATTTGAAAAACGGAGTCAAAGACATTCAGAAACACAACTCTTGTAAATGTGAAACTCTGGGCCATCGATCGACAATGTTTTCAAACAATAATGATGAGGACAGGACTCATCAAGCATACCGAGTACATGGAATTTTTAAAAAGTGTTCCAACATTCCAGAGCCTTCCTGA
Peptide sequence:
MMRTGLIKHTEYMEFLKSVPTFQSLPDEILSKLADVLEETHYENGEYIIRQGARGDTFFIISKGQVNVTREDSPSEDPVFLRTLGKGDWFGEKALQGEDVRTANVIAAEAVTCLVIDRDSFKHLIGGLDDVSNKAYEDAEAKAKYEAEAAFFANLKLSDFNIIDTLGVGGFGRVELVQLKSEESKTFAMKILKKRHIVDTRQQEHIRSEKQIMQGAHSDFIVRLYRTFKDSKYLYMLMEACLGGELWTILRDRGSFEDSTTRFYTACVVEAFAYLHSKGIIYRDLKPENLILDHRGYAKLVDFGFAKKIGFGKKTWTFCGTPEYVAPEIILNKGHDISADYWSLGILMYELLTGSPPFSGPDPMKTYNIILRGIDMIEFPKKIAKNAANLIKKLCRDNPSERLGNLKNGVKDIQKHNSCKCETLGHRSTMFSNNNDEDRTHQAYRVHGIFKKCSNIPEPS
IRESfinder result
IRESfinder score
0.591649478
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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