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mmu_circClec16a_997
Basic information of circular RNA
PanCircBase ID:
mmu_circClec16a_997
mm39_Chr. Position ID:
chr16|10413665|10462745|+
Gene name:
Clec16a
Transcript:
ENSMUST00000115824.10
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
9
Exon/intron indexes:
11,12,13,14,15,16,17,18,19
Exon/intron offsets:
0,15201,18698,31577,34243,34955,39444,42985,48959
Genomic length:
49080
Exon/intron sizes in nt:
18,41,33,10,11,23,11,00,00,00,00,000
Flanking exon/introns:
chr16:10398906-10413665|chr16:10462745-10506343
Splice length:
997
Other database IDs:
circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_143874
Human Ortholog IDs:
Mature spliced Sequence:
GCCAAGCCCAGCATCCGGTGCTTCATTAAGCCCACTGAGACACTCGAGCGGTCCCTTGAGATGAACAAGCACAAGGGCAAGAAGCGGATGCAAAAGAGACCCAACTACAAAAACGTTGGGGAGGAGGAGGACGAGGAGAGAGGGTCTGCTGAAGATGCCCAGGAAGACGCTGAGAAGACTAAAGAGATTGAGATGGTGATCATGAAGCTTGGCAAGCTCTCAGAGGTGGCCGCTGCTGGGACCTCAGTGCAGGAGCAGAACACCACAGACGAGGAGAAGAGCGCCGCCACGAACTCAGAGAATGCACAGTGGAGCAGACCCTTCCTGGATATGGTGTACCATGCCCTGGACAGCCCTGACGATGACTATCACGCCCTCTTCGTGCTCTGCCTCCTGTATGCCATGTCTCATAACAAAGGCATGGATCCTGAAAAACTAAAACGAATTCAGCTCCCAGTGCCAAGTGAAGCTGAGAAAACCACCTACAACCATCTGCTGGCCGAGAGGCTCATCAGGATCATGAACAATGCTGCTCAGCCAGATGGCAGGATCCGGTTGGCTACACTGGAGCTGAGCTGCCTGCTCCTGAAGCAGCAAGTACTGACCAGCTCTGGCTGTGTCATCAAGGATGTGCACCTGGCCTGTTTGGAGGGTGCAAGAGAAGAGAGTGTCCACCTTGTACGTCATTTCTATAAGGGAGAAGAGATTTTCTTGGACATGTTTGAAGATGAGTACAGGAGCATGACAATAAAGCCCATGAATGTGGAGTATCTCATGATGGATGCTTCCATCCTCCTGCCCCCAACGGGCACTCCACTGACTGGCATTGACTTTGTGAAGCGGCTGCCATGTGGTGATGTGGAGAAGACGAGGCGGGCCATCCGGGTATTCTTCATGCTGCGTTCCCTGTCACTGCAGCTGCGAGGGGAACCTGAGACCCAGTTGCCACTGACTCGGGAGGAGGACCTGATCAAAACAGATGATGTCTTGGATCTGA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GAACCTGAGACCCAGTTGCC
60.61
TTTTGCATCCGCTTCTTGCC
60.04
165
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GGAACCTGAGACCCAGTTGC
60.61
TTTTGCATCCGCTTCTTGCC
60.04
166
PCR template sequence:
CTGCGTTCCCTGTCACTGCAGCTGCGAGGGGAACCTGAGACCCAGTTGCCACTGACTCGGGAGGAGGACCTGATCAAAACAGATGATGTCTTGGATCTGAGCCAAGCCCAGCATCCGGTGCTTCATTAAGCCCACTGAGACACTCGAGCGGTCCCTTGAGATGAACAAGCACAAGGGCAAGAAGCGGATGCAAAAGAGAC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
17
Interacting miRNAs (#binding sites)
mmu-miR-433-3p(2), mmu-miR-199a-5p(1), mmu-miR-103-3p(1), mmu-miR-322-5p(1), mmu-miR-15b-5p(1), mmu-miR-709(1), mmu-miR-181b-5p(1), mmu-miR-381-3p(1), mmu-miR-96-5p(1), mmu-miR-218-5p(1), mmu-miR-183-5p(1), mmu-miR-107-3p(1), mmu-miR-207(1), mmu-miR-532-5p(1), mmu-miR-350-3p(1), mmu-miR-1904(1), mmu-miR-181d-5p(1)
siRNAs for circular RNA silencing
Junction sequence
GTCTTGGATCTGAGCCAAGCCCAGCA
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCCLEC16A_997_ORF_1
1.2538
0.461073188
0.997262627
966
ORF sequence:
ATGAACAAGCACAAGGGCAAGAAGCGGATGCAAAAGAGACCCAACTACAAAAACGTTGGGGAGGAGGAGGACGAGGAGAGAGGGTCTGCTGAAGATGCCCAGGAAGACGCTGAGAAGACTAAAGAGATTGAGATGGTGATCATGAAGCTTGGCAAGCTCTCAGAGGTGGCCGCTGCTGGGACCTCAGTGCAGGAGCAGAACACCACAGACGAGGAGAAGAGCGCCGCCACGAACTCAGAGAATGCACAGTGGAGCAGACCCTTCCTGGATATGGTGTACCATGCCCTGGACAGCCCTGACGATGACTATCACGCCCTCTTCGTGCTCTGCCTCCTGTATGCCATGTCTCATAACAAAGGCATGGATCCTGAAAAACTAAAACGAATTCAGCTCCCAGTGCCAAGTGAAGCTGAGAAAACCACCTACAACCATCTGCTGGCCGAGAGGCTCATCAGGATCATGAACAATGCTGCTCAGCCAGATGGCAGGATCCGGTTGGCTACACTGGAGCTGAGCTGCCTGCTCCTGAAGCAGCAAGTACTGACCAGCTCTGGCTGTGTCATCAAGGATGTGCACCTGGCCTGTTTGGAGGGTGCAAGAGAAGAGAGTGTCCACCTTGTACGTCATTTCTATAAGGGAGAAGAGATTTTCTTGGACATGTTTGAAGATGAGTACAGGAGCATGACAATAAAGCCCATGAATGTGGAGTATCTCATGATGGATGCTTCCATCCTCCTGCCCCCAACGGGCACTCCACTGACTGGCATTGACTTTGTGAAGCGGCTGCCATGTGGTGATGTGGAGAAGACGAGGCGGGCCATCCGGGTATTCTTCATGCTGCGTTCCCTGTCACTGCAGCTGCGAGGGGAACCTGAGACCCAGTTGCCACTGACTCGGGAGGAGGACCTGATCAAAACAGATGATGTCTTGGATCTGAGCCAAGCCCAGCATCCGGTGCTTCATTAA
Peptide sequence:
MNKHKGKKRMQKRPNYKNVGEEEDEERGSAEDAQEDAEKTKEIEMVIMKLGKLSEVAAAGTSVQEQNTTDEEKSAATNSENAQWSRPFLDMVYHALDSPDDDYHALFVLCLLYAMSHNKGMDPEKLKRIQLPVPSEAEKTTYNHLLAERLIRIMNNAAQPDGRIRLATLELSCLLLKQQVLTSSGCVIKDVHLACLEGAREESVHLVRHFYKGEEIFLDMFEDEYRSMTIKPMNVEYLMMDASILLPPTGTPLTGIDFVKRLPCGDVEKTRRAIRVFFMLRSLSLQLRGEPETQLPLTREEDLIKTDDVLDLSQAQHPVLH
IRESfinder result
IRESfinder score
0.256731744
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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