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mmu_circMap4k3_507
Basic information of circular RNA
PanCircBase ID:
mmu_circMap4k3_507
mm39_Chr. Position ID:
chr17|80909621|80919544|-
Gene name:
Map4k3
Transcript:
ENSMUST00000112389.9
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
6
Exon/intron indexes:
28,27,26,25,24,23
Exon/intron offsets:
0,1790,3574,3767,7559,9838
Genomic length:
9923
Exon/intron sizes in nt:
104,59,118,61,80,85
Flanking exon/introns:
chr17:80905153-80909621|chr17:80919544-80920896
Splice length:
507
Other database IDs:
CIRCpedia: MMU_CIRCpedia_212606, circAtlas: mmu-Map4k3_0011
circBase: hsa_circ_0120010, circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_91826
Human Ortholog IDs:
Mature spliced Sequence:
ATGGGAGCGTGTTTTTCAAAGGTTTTTAATGGATGTCCCTTGAAAATCCACTGTGCCACATCCTGGATAAACCCAGACACGAGAGACCAGTACTTGATATTTGGCGCTGAAGAGGGCATTTATACCCTTAATCTCAATGAACTTCATGAAACATCAATGGAACAGCTGTTCCCCCGCAGGTGTACGTGGCTGTATGTGATGAACAATTGCCTGCTGTCAGTCTCGGGCAAAGCCTCTCAGCTTTACTCCCACAACTTACCGGGGCTTTTCGATTATGCAAGACAGATGCAGAAGCTTCCAGTAGCCATCCCAGCACACAAGCTCCCCGACCGAATACTGCCCAGGAAATTTGCTGTATCAGCAAAGATTCCTGAAACCAAATGGTGCCAGAAGTGCTGCGTGGTGAGAAATCCTTACACGGGCCATAAGTACCTGTGCGGGGCGCTTCAGACCAGCATTGTTCTATTAGAATGGGTTGAGCCAATGCAGAAATTTATGTTAATTAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CCATAAGTACCTGTGCGGGG
60.18
CAGGATGTGGCACAGTGGAT
60.03
150
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ACGGGCCATAAGTACCTGTG
59.46
CAGGATGTGGCACAGTGGAT
60.03
155
PCR template sequence:
AAATCCTTACACGGGCCATAAGTACCTGTGCGGGGCGCTTCAGACCAGCATTGTTCTATTAGAATGGGTTGAGCCAATGCAGAAATTTATGTTAATTAAGATGGGAGCGTGTTTTTCAAAGGTTTTTAATGGATGTCCCTTGAAAATCCACTGTGCCACATCCTGGATAAACCCAGACACGAGAGACCAGTACTTGATAT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
6
Interacting miRNAs (#binding sites)
mmu-miR-29b-3p(1), mmu-miR-214-3p(1), mmu-miR-127-5p(1), mmu-miR-705(1), mmu-miR-29b-2-5p(1), mmu-miR-669d-5p(1)
siRNAs for circular RNA silencing
Junction sequence
TATGTTAATTAAGATGGGAGCGTGTT
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCMAP4K3_507_ORF_1
0.8654
0.051603073
0.979584893
1014
ORF sequence:
ATGGGAGCGTGTTTTTCAAAGGTTTTTAATGGATGTCCCTTGAAAATCCACTGTGCCACATCCTGGATAAACCCAGACACGAGAGACCAGTACTTGATATTTGGCGCTGAAGAGGGCATTTATACCCTTAATCTCAATGAACTTCATGAAACATCAATGGAACAGCTGTTCCCCCGCAGGTGTACGTGGCTGTATGTGATGAACAATTGCCTGCTGTCAGTCTCGGGCAAAGCCTCTCAGCTTTACTCCCACAACTTACCGGGGCTTTTCGATTATGCAAGACAGATGCAGAAGCTTCCAGTAGCCATCCCAGCACACAAGCTCCCCGACCGAATACTGCCCAGGAAATTTGCTGTATCAGCAAAGATTCCTGAAACCAAATGGTGCCAGAAGTGCTGCGTGGTGAGAAATCCTTACACGGGCCATAAGTACCTGTGCGGGGCGCTTCAGACCAGCATTGTTCTATTAGAATGGGTTGAGCCAATGCAGAAATTTATGTTAATTAAGATGGGAGCGTGTTTTTCAAAGGTTTTTAATGGATGTCCCTTGAAAATCCACTGTGCCACATCCTGGATAAACCCAGACACGAGAGACCAGTACTTGATATTTGGCGCTGAAGAGGGCATTTATACCCTTAATCTCAATGAACTTCATGAAACATCAATGGAACAGCTGTTCCCCCGCAGGTGTACGTGGCTGTATGTGATGAACAATTGCCTGCTGTCAGTCTCGGGCAAAGCCTCTCAGCTTTACTCCCACAACTTACCGGGGCTTTTCGATTATGCAAGACAGATGCAGAAGCTTCCAGTAGCCATCCCAGCACACAAGCTCCCCGACCGAATACTGCCCAGGAAATTTGCTGTATCAGCAAAGATTCCTGAAACCAAATGGTGCCAGAAGTGCTGCGTGGTGAGAAATCCTTACACGGGCCATAAGTACCTGTGCGGGGCGCTTCAGACCAGCATTGTTCTATTAGAATGGGTTGAGCCAATGCAGAAATTTATGTTAATTAAG
Peptide sequence:
MGACFSKVFNGCPLKIHCATSWINPDTRDQYLIFGAEEGIYTLNLNELHETSMEQLFPRRCTWLYVMNNCLLSVSGKASQLYSHNLPGLFDYARQMQKLPVAIPAHKLPDRILPRKFAVSAKIPETKWCQKCCVVRNPYTGHKYLCGALQTSIVLLEWVEPMQKFMLIKMGACFSKVFNGCPLKIHCATSWINPDTRDQYLIFGAEEGIYTLNLNELHETSMEQLFPRRCTWLYVMNNCLLSVSGKASQLYSHNLPGLFDYARQMQKLPVAIPAHKLPDRILPRKFAVSAKIPETKWCQKCCVVRNPYTGHKYLCGALQTSIVLLEWVEPMQKFMLIK
IRESfinder result
IRESfinder score
0.697797977
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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