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mmu_circZc3h7a_407
Basic information of circular RNA
PanCircBase ID:
mmu_circZc3h7a_407
mm39_Chr. Position ID:
chr16|10956884|10959635|-
Gene name:
Zc3h7a
Transcript:
ENSMUST00000037633.16
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
22,21,20
Exon/intron offsets:
0,1696,2642
Genomic length:
2751
Exon/intron sizes in nt:
16,41,34,109
Flanking exon/introns:
chr16:10955349-10956884|chr16:10959635-10963043
Splice length:
407
Other database IDs:
circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_80889
Human Ortholog IDs:
Mature spliced Sequence:
CTATGCAACCATATTGCTAATAGAAAAAAGTGTCAGTATGTTGGCAACTGTTCCTTTGCTCATAGTCCAGAGGAGCGGGAAGTGTGGACTTACATGAAGGATAACAAAATACATGATATAGAGCAATTTTATGAACTCTGGCTGAAGAACCAAAAAACTGAAAAAAGTGATGAGACAGCCAGTCACTGTAGCAAAGAAAACGGGAAGCAGATCCATATGCCAACAGACTATGCTGAAGTCACTGTGGACTTCCACTGCTGGATGTGTGGGAAGAACTGTAACAGTGAGAAGCAATGGCAAGACCACATCTCCTCTGAGAAGCACAAGGAGAAGGTTTTCCACACTGAGGATGACCAGTACTGCTGGCAGCACCGCTTCCCCACTGGGTACTTCAGTATTTGTGAGAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CCACACTGAGGATGACCAGT
59.02
TGTAAGTCCACACTTCCCGC
59.97
163
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CCACACTGAGGATGACCAGT
59.02
TTCCCGCTCCTCTGGACTAT
59.74
150
PCR template sequence:
TCTCCTCTGAGAAGCACAAGGAGAAGGTTTTCCACACTGAGGATGACCAGTACTGCTGGCAGCACCGCTTCCCCACTGGGTACTTCAGTATTTGTGAGAGCTATGCAACCATATTGCTAATAGAAAAAAGTGTCAGTATGTTGGCAACTGTTCCTTTGCTCATAGTCCAGAGGAGCGGGAAGTGTGGACTTACATGAAGG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
4
Interacting miRNAs (#binding sites)
mmu-miR-134-5p(1), mmu-miR-298-5p(1), mmu-miR-139-5p(1), mmu-miR-207(1)
siRNAs for circular RNA silencing
Junction sequence
GTATTTGTGAGAGCTATGCAACCATA
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCZC3H7A_407_ORF_1
0.7733
0.127906221
0.416967163
411
ORF sequence:
ATGAAGGATAACAAAATACATGATATAGAGCAATTTTATGAACTCTGGCTGAAGAACCAAAAAACTGAAAAAAGTGATGAGACAGCCAGTCACTGTAGCAAAGAAAACGGGAAGCAGATCCATATGCCAACAGACTATGCTGAAGTCACTGTGGACTTCCACTGCTGGATGTGTGGGAAGAACTGTAACAGTGAGAAGCAATGGCAAGACCACATCTCCTCTGAGAAGCACAAGGAGAAGGTTTTCCACACTGAGGATGACCAGTACTGCTGGCAGCACCGCTTCCCCACTGGGTACTTCAGTATTTGTGAGAGCTATGCAACCATATTGCTAATAGAAAAAAGTGTCAGTATGTTGGCAACTGTTCCTTTGCTCATAGTCCAGAGGAGCGGGAAGTGTGGACTTACATGA
Peptide sequence:
MKDNKIHDIEQFYELWLKNQKTEKSDETASHCSKENGKQIHMPTDYAEVTVDFHCWMCGKNCNSEKQWQDHISSEKHKEKVFHTEDDQYCWQHRFPTGYFSICESYATILLIEKSVSMLATVPLLIVQRSGKCGLT
IRESfinder result
IRESfinder score
0.393400906
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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