top of page
mmu_circZmym4_781
Basic information of circular RNA
PanCircBase ID:
mmu_circZmym4_781
mm39_Chr. Position ID:
chr4|126762509|126776404|-
Gene name:
Zmym4
Transcript:
ENSMUST00000135003.2
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
5
Exon/intron indexes:
22,21,20,19,18
Exon/intron offsets:
0,1466,8912,13498,13723
Genomic length:
13895
Exon/intron sizes in nt:
249,112,152,96,172
Flanking exon/introns:
chr4:126759419-126762509|chr4:126776404-126783307
Splice length:
781
Other database IDs:
CIRCpedia: MMU_CIRCpedia_6731, circAtlas: mmu-Zmym4_0024
circBase: hsa_circ_0113179, circAtlas: hsa-ZMYM4_0022, CIRCpedia: HSA_CIRCpedia_31558
Human Ortholog IDs:
Mature spliced Sequence:
GGGAGGAAGAAGTCTGTGGTACCTGTGGAACCCAGAAGTCTTATTCAAGGAGCCTTGCAAGGGTGCTCAGTGTCTGGAATGACACTGAAGTATATGTATGGGGTAAATGCCTGGAAGAACTGGGTTCAGTGGAAAAATGCCAAGGATGAACAAGGAGATCTGAAGTGCGGGGGAGGTGAACTTGCCTCTGCTAGTCCGTGTTCTGACTCCTTAGGAAGTGCTCAAGACCATGCCCTCTCTCAAGAATCCTCAGAGCAAGGCTGTAAAGCCCGCTCTGTGAAACTGAAGGAAGATATTCTGTCCTGCACTTTTTCTGAGTTGAGTTTGGGCTTATGCCAGTTTATCCAAGAGGTGCGGAGACCAAATGGTGAAAAGTATGACCCAGACAGTATCTTATACCTGTGCCTTGGAATTCAGCAGTACCTATTTGAAAATGGTAGAATAGATAACATTTTTACGGAGCCCTATTCCAGATTTATGATTGAACTTACCAAACTCTTGAAAATATGGGAACCTACAATACTTCCTAATGGTTACATGTTCTCCCGCATTGAAGAAGAGCATCTGTGGGAGTGCAAACAGCTGGGCGCTTACTCGCCCATTGTCCTGTTAAACACCCTCCTTTTTTTCAATACCAAATACTTCCAACTAAGGAATGTTACTGAGCACTTGAAGCTGTCCTTTGCCCACGTGATGCGCCGGACCAGGACTCTGAAGTACAGCACCAAGATGACGTACCTGAGGTTCTTCCCGCCTTTACAGAAGCCGGAGTCAGAGCCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CCGGACCAGGACTCTGAAGT
60.9
ATTCCAGACACTGAGCACCC
59.67
163
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AGCACCAAGATGACGTACCTG
60.07
ATTCCAGACACTGAGCACCC
59.67
141
PCR template sequence:
TTTGCCCACGTGATGCGCCGGACCAGGACTCTGAAGTACAGCACCAAGATGACGTACCTGAGGTTCTTCCCGCCTTTACAGAAGCCGGAGTCAGAGCCAGGGGAGGAAGAAGTCTGTGGTACCTGTGGAACCCAGAAGTCTTATTCAAGGAGCCTTGCAAGGGTGCTCAGTGTCTGGAATGACACTGAAGTATATGTATG
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-124-3p(1), mmu-miR-429-3p(1), mmu-miR-106b-5p(1), mmu-miR-152-3p(1), mmu-miR-298-5p(1), mmu-miR-149-5p(1)
siRNAs for circular RNA silencing
Junction sequence
GAGTCAGAGCCAGGGGAGGAAGAAGT
siRNA sets
ACTTCTTCCTCCCCTGGCT, TCTTCCTCCCCTGGCTCTG, CTTCTTCCTCCCCTGGCTC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCZMYM4_781_ORF_1
0.6347
0.1063668
0.923002987
852
ORF sequence:
ATGACACTGAAGTATATGTATGGGGTAAATGCCTGGAAGAACTGGGTTCAGTGGAAAAATGCCAAGGATGAACAAGGAGATCTGAAGTGCGGGGGAGGTGAACTTGCCTCTGCTAGTCCGTGTTCTGACTCCTTAGGAAGTGCTCAAGACCATGCCCTCTCTCAAGAATCCTCAGAGCAAGGCTGTAAAGCCCGCTCTGTGAAACTGAAGGAAGATATTCTGTCCTGCACTTTTTCTGAGTTGAGTTTGGGCTTATGCCAGTTTATCCAAGAGGTGCGGAGACCAAATGGTGAAAAGTATGACCCAGACAGTATCTTATACCTGTGCCTTGGAATTCAGCAGTACCTATTTGAAAATGGTAGAATAGATAACATTTTTACGGAGCCCTATTCCAGATTTATGATTGAACTTACCAAACTCTTGAAAATATGGGAACCTACAATACTTCCTAATGGTTACATGTTCTCCCGCATTGAAGAAGAGCATCTGTGGGAGTGCAAACAGCTGGGCGCTTACTCGCCCATTGTCCTGTTAAACACCCTCCTTTTTTTCAATACCAAATACTTCCAACTAAGGAATGTTACTGAGCACTTGAAGCTGTCCTTTGCCCACGTGATGCGCCGGACCAGGACTCTGAAGTACAGCACCAAGATGACGTACCTGAGGTTCTTCCCGCCTTTACAGAAGCCGGAGTCAGAGCCAGGGGAGGAAGAAGTCTGTGGTACCTGTGGAACCCAGAAGTCTTATTCAAGGAGCCTTGCAAGGGTGCTCAGTGTCTGGAATGACACTGAAGTATATGTATGGGGTAAATGCCTGGAAGAACTGGGTTCAGTGGAAAAATGCCAAGGATGA
Peptide sequence:
MTLKYMYGVNAWKNWVQWKNAKDEQGDLKCGGGELASASPCSDSLGSAQDHALSQESSEQGCKARSVKLKEDILSCTFSELSLGLCQFIQEVRRPNGEKYDPDSILYLCLGIQQYLFENGRIDNIFTEPYSRFMIELTKLLKIWEPTILPNGYMFSRIEEEHLWECKQLGAYSPIVLLNTLLFFNTKYFQLRNVTEHLKLSFAHVMRRTRTLKYSTKMTYLRFFPPLQKPESEPGEEEVCGTCGTQKSYSRSLARVLSVWNDTEVYVWGKCLEELGSVEKCQG
IRESfinder result
IRESfinder score
0.573179834
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
bottom of page