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mmu_circZcchc4_647
Basic information of circular RNA
PanCircBase ID:
mmu_circZcchc4_647
mm39_Chr. Position ID:
chr5|52964298|52976607|+
Gene name:
Zcchc4
Transcript:
ENSMUST00000113901.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
6
Exon/intron indexes:
6,7,8,9,10,11
Exon/intron offsets:
0,1303,8844,9205,11650,12164
Genomic length:
12309
Exon/intron sizes in nt:
1,51,10,11,22,76,52,140
Flanking exon/introns:
chr5:52961793-52964298|chr5:52976607-52980959
Splice length:
647
Other database IDs:
circAtlas: mmu-Zcchc4_0026
circAtlas: hsa-ZCCHC4_0026
Human Ortholog IDs:
Mature spliced Sequence:
GCTGCCCTTGAAGTGTGCAAGGAATTCTTACAGGAAGAGGAAGGCAAGGGGGTGATTATGGTGACAGACCCTCCCTTTGGCGGCTTGGTGGAACCTCTGGCTATTACATTCAAGAAGTTAATTGCTATGTGGAAAGAAGGTCAAAGCCAAGATGACAGCCACAAAGAACTGCCCATTTTCTGGATTTTCCCCTATTTTTTTGAATCACGGATTTGTCAGTTTTTCCCGAGCTTCTGCATGCTGGATTACCAGGTGGATTATGATAATCATGCGCTTTACAAACATGGAAAGACAGGTCGAAAACAGTCTCCTGTCCGAATTTTCACCAACGTTCCACCCAACAAAATAATCCTTCCATCAGAGGAAGGATACAGATTTTGCTCCCTCTGTCAGAGATATGTCTCTCGTGAGAACCAGCACTGTGTGCATTGTAATTCTTGCACATCCAAGGACGGCAGGAAATGGAGCCATTGCTTTCTCTGCAAAAAGTGTGTGAAGCCTTCCTGGATCCATTGTAACACCTGCAATCGCTGTGCACTCCCAGACCATTCCTGTTTGGGGCCTAAAGATGGCTGCTTTATTTGTGGTGCGCTGGATCACAAACGCAGCAATTGTCCCAACATCGGCACCTCTTGGAGAGCTAACAA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ATTTGTGGTGCGCTGGATCA
60.61
CAAAGGGAGGGTCTGTCACC
59.96
147
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ATTTGTGGTGCGCTGGATCA
60.61
CCAAAGGGAGGGTCTGTCAC
59.96
148
PCR template sequence:
ATTCCTGTTTGGGGCCTAAAGATGGCTGCTTTATTTGTGGTGCGCTGGATCACAAACGCAGCAATTGTCCCAACATCGGCACCTCTTGGAGAGCTAACAAGCTGCCCTTGAAGTGTGCAAGGAATTCTTACAGGAAGAGGAAGGCAAGGGGGTGATTATGGTGACAGACCCTCCCTTTGGCGGCTTGGTGGAACCTCTGG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
5
Interacting miRNAs (#binding sites)
mmu-miR-148b-3p(1), mmu-miR-148a-3p(1), mmu-miR-128-3p(1), mmu-miR-541-5p(1), mmu-miR-338-3p(1)
siRNAs for circular RNA silencing
Junction sequence
GGAGAGCTAACAAGCTGCCCTTGAAG
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCZCCHC4_647_ORF_1
0.8657
0.006749849
0.73471163
645
ORF sequence:
ATGGTGACAGACCCTCCCTTTGGCGGCTTGGTGGAACCTCTGGCTATTACATTCAAGAAGTTAATTGCTATGTGGAAAGAAGGTCAAAGCCAAGATGACAGCCACAAAGAACTGCCCATTTTCTGGATTTTCCCCTATTTTTTTGAATCACGGATTTGTCAGTTTTTCCCGAGCTTCTGCATGCTGGATTACCAGGTGGATTATGATAATCATGCGCTTTACAAACATGGAAAGACAGGTCGAAAACAGTCTCCTGTCCGAATTTTCACCAACGTTCCACCCAACAAAATAATCCTTCCATCAGAGGAAGGATACAGATTTTGCTCCCTCTGTCAGAGATATGTCTCTCGTGAGAACCAGCACTGTGTGCATTGTAATTCTTGCACATCCAAGGACGGCAGGAAATGGAGCCATTGCTTTCTCTGCAAAAAGTGTGTGAAGCCTTCCTGGATCCATTGTAACACCTGCAATCGCTGTGCACTCCCAGACCATTCCTGTTTGGGGCCTAAAGATGGCTGCTTTATTTGTGGTGCGCTGGATCACAAACGCAGCAATTGTCCCAACATCGGCACCTCTTGGAGAGCTAACAAGCTGCCCTTGAAGTGTGCAAGGAATTCTTACAGGAAGAGGAAGGCAAGGGGGTGA
Peptide sequence:
MVTDPPFGGLVEPLAITFKKLIAMWKEGQSQDDSHKELPIFWIFPYFFESRICQFFPSFCMLDYQVDYDNHALYKHGKTGRKQSPVRIFTNVPPNKIILPSEEGYRFCSLCQRYVSRENQHCVHCNSCTSKDGRKWSHCFLCKKCVKPSWIHCNTCNRCALPDHSCLGPKDGCFICGALDHKRSNCPNIGTSWRANKLPLKCARNSYRKRKARG
IRESfinder result
IRESfinder score
0.59499401
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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