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mmu_circAgk_675
Basic information of circular RNA
PanCircBase ID:
mmu_circAgk_675
mm39_Chr. Position ID:
chr6|40341208|40364475|+
Gene name:
Agk
Transcript:
ENSMUST00000031977.12
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
8
Exon/intron indexes:
6,7,8,9,10,11,12,13
Exon/intron offsets:
0,2466,4306,11947,16929,19485,22539,23169
Genomic length:
23267
Exon/intron sizes in nt:
93,33,95,70,80,58,148,98
Flanking exon/introns:
chr6:40334054-40341208|chr6:40364475-40369586
Splice length:
675
Other database IDs:
CIRCpedia: MMU_CIRCpedia_19342, circAtlas: mmu-Agk_0003
circBase: hsa_circ_0082780, circAtlas: hsa-AGK_0008, CIRCpedia: HSA_CIRCpedia_57106
Human Ortholog IDs:
Mature spliced Sequence:
ACGGATTATGAGGGACAAGCCAAGAAGCTCTTGGAGTTGATGGAAAGCACTGATGTGATCATTGTTGCTGGAGGAGACGGCACACTGCAGGAGGTTGTTACTGGAGTACTGAGAAGAACAGATGAGGCTACCTTCAGTAAGATTCCCATTGGATTTATCCCGCTGGGACAGACCAGTAGTTTGAGTCACACTCTCTTTGCTGAAAGTGGAAACAAAGTCCAACATATTACAGACGCCACACTTGCCATTGTGAAAGGAGAGACTGTTCCACTTGATGTCTTGCAGATCAAGGGTGAAAAAGAACAACCTGTGTATGCAATGACTGGCCTCCGGTGGGGATCTTTCAGAGATGCTGGCGTCAAAGTTAGCAAGTACTGGTATCTTGGTCCACTAAAAACCAAAGCAGCCCACTTTTTCAGCACTCTTCAGGAATGGCCTCAGACTCATCAAGCCTCCATCTCTTACACGGGACCTAGAGAGAGACCTCCCATTGAGCCTGAAGAGACTCCTCCCAGGCCGTCTCTGTATAGGAGAATATTACGCAGGCTTGCCTCATTCTGGGCACAGCCACAGGATGCCTCCTCCCGAGAGGTAAGCCCTGAGGTCTGGAAAGATGTACAACTGTCCACCATTGAACTGTCCATCACAACCCGAAACACCCAACTTGACCTGATG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AGCCCTGAGGTCTGGAAAGA
60.18
CCGTCTCCTCCAGCAACAAT
60.04
161
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GGTAAGCCCTGAGGTCTGGA
60.62
CCGTCTCCTCCAGCAACAAT
60.04
165
PCR template sequence:
TGCCTCCTCCCGAGAGGTAAGCCCTGAGGTCTGGAAAGATGTACAACTGTCCACCATTGAACTGTCCATCACAACCCGAAACACCCAACTTGACCTGATGACGGATTATGAGGGACAAGCCAAGAAGCTCTTGGAGTTGATGGAAAGCACTGATGTGATCATTGTTGCTGGAGGAGACGGCACACTGCAGGAGGTTGTTA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
11
Interacting miRNAs (#binding sites)
mmu-miR-802-5p(2), mmu-miR-9-5p(1), mmu-miR-27b-3p(1), mmu-miR-27a-3p(1), mmu-miR-196a-5p(1), mmu-miR-212-3p(1), mmu-miR-27a-5p(1), mmu-miR-484(1), mmu-miR-452-3p(1), mmu-miR-574-5p(1), mmu-miR-338-3p(1)
siRNAs for circular RNA silencing
Junction sequence
ACTTGACCTGATGACGGATTATGAGG
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCAGK_675_ORF_1
1.0067
0.15592402
0.998765126
1311
ORF sequence:
ATGGAAAGCACTGATGTGATCATTGTTGCTGGAGGAGACGGCACACTGCAGGAGGTTGTTACTGGAGTACTGAGAAGAACAGATGAGGCTACCTTCAGTAAGATTCCCATTGGATTTATCCCGCTGGGACAGACCAGTAGTTTGAGTCACACTCTCTTTGCTGAAAGTGGAAACAAAGTCCAACATATTACAGACGCCACACTTGCCATTGTGAAAGGAGAGACTGTTCCACTTGATGTCTTGCAGATCAAGGGTGAAAAAGAACAACCTGTGTATGCAATGACTGGCCTCCGGTGGGGATCTTTCAGAGATGCTGGCGTCAAAGTTAGCAAGTACTGGTATCTTGGTCCACTAAAAACCAAAGCAGCCCACTTTTTCAGCACTCTTCAGGAATGGCCTCAGACTCATCAAGCCTCCATCTCTTACACGGGACCTAGAGAGAGACCTCCCATTGAGCCTGAAGAGACTCCTCCCAGGCCGTCTCTGTATAGGAGAATATTACGCAGGCTTGCCTCATTCTGGGCACAGCCACAGGATGCCTCCTCCCGAGAGGTAAGCCCTGAGGTCTGGAAAGATGTACAACTGTCCACCATTGAACTGTCCATCACAACCCGAAACACCCAACTTGACCTGATGACGGATTATGAGGGACAAGCCAAGAAGCTCTTGGAGTTGATGGAAAGCACTGATGTGATCATTGTTGCTGGAGGAGACGGCACACTGCAGGAGGTTGTTACTGGAGTACTGAGAAGAACAGATGAGGCTACCTTCAGTAAGATTCCCATTGGATTTATCCCGCTGGGACAGACCAGTAGTTTGAGTCACACTCTCTTTGCTGAAAGTGGAAACAAAGTCCAACATATTACAGACGCCACACTTGCCATTGTGAAAGGAGAGACTGTTCCACTTGATGTCTTGCAGATCAAGGGTGAAAAAGAACAACCTGTGTATGCAATGACTGGCCTCCGGTGGGGATCTTTCAGAGATGCTGGCGTCAAAGTTAGCAAGTACTGGTATCTTGGTCCACTAAAAACCAAAGCAGCCCACTTTTTCAGCACTCTTCAGGAATGGCCTCAGACTCATCAAGCCTCCATCTCTTACACGGGACCTAGAGAGAGACCTCCCATTGAGCCTGAAGAGACTCCTCCCAGGCCGTCTCTGTATAGGAGAATATTACGCAGGCTTGCCTCATTCTGGGCACAGCCACAGGATGCCTCCTCCCGAGAGGTAAGCCCTGAGGTCTGGAAAGATGTACAACTGTCCACCATTGAACTGTCCATCACAACCCGAAACACCCAACTTGACCTGATG
Peptide sequence:
MESTDVIIVAGGDGTLQEVVTGVLRRTDEATFSKIPIGFIPLGQTSSLSHTLFAESGNKVQHITDATLAIVKGETVPLDVLQIKGEKEQPVYAMTGLRWGSFRDAGVKVSKYWYLGPLKTKAAHFFSTLQEWPQTHQASISYTGPRERPPIEPEETPPRPSLYRRILRRLASFWAQPQDASSREVSPEVWKDVQLSTIELSITTRNTQLDLMTDYEGQAKKLLELMESTDVIIVAGGDGTLQEVVTGVLRRTDEATFSKIPIGFIPLGQTSSLSHTLFAESGNKVQHITDATLAIVKGETVPLDVLQIKGEKEQPVYAMTGLRWGSFRDAGVKVSKYWYLGPLKTKAAHFFSTLQEWPQTHQASISYTGPRERPPIEPEETPPRPSLYRRILRRLASFWAQPQDASSREVSPEVWKDVQLSTIELSITTRNTQLDLM
IRESfinder result
IRESfinder score
0.560021887
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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