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mmu_circZc3h7a_557
Basic information of circular RNA
PanCircBase ID:
mmu_circZc3h7a_557
mm39_Chr. Position ID:
chr16|10964230|10967271|-
Gene name:
Zc3h7a
Transcript:
ENSMUST00000037633.16
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
17,16,15,14
Exon/intron offsets:
0,902,2078,2844
Genomic length:
3041
Exon/intron sizes in nt:
77,18,21,01,197
Flanking exon/introns:
chr16:10963643-10964230|chr16:10967271-10968458
Splice length:
557
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
ATGTTGCTGCAGATGATGAATGCCGATATCCTGGCCACTGTACATTTGCTTATTGCCAAGAAGAGATAGATGTGTGGACCCTGGAAAGAAAAGGGGCATTCAGTCGAGAGGCTTTCTTTGGGGGCAATGGAAAGATCAACCTTACTGTGGTCAGAATTCTCCAAGAGCATCATGGAGAGTTTACATTCCTTTGTGAGAAATGTTTTGATCATAAACCTAGAATGATAAGTAAAAGAAATAAAGATAATTCCACTGCCTGCTCTCACCCCGTCACAAAGCATGAATTTGAGGACAATAAGTGCCTTGTCCACATTTTGAGAGAGACCACAGTAAAATATTCCAAAATACGTTCTTTTCATAAACAATGTCAATTTGATATTTGTCGACATGAAGTTCGTTATGGCTGCGTGAGGGAAGATGAGTGCTTCTATGCCCATAGTCTTATTGAACTGAAAGTCTGGATAATGCAAAGTGAAAGAGGTATCTCCCATGATGATATTGCTCAACAATCCAAACAATATTGGAGAAGTTTGCAAGCAAGCATGCCGGGAGTGCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GCAAAGTGAAAGAGGTATCTCCC
59.06
GCAAATGTACAGTGGCCAGG
59.47
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GCAAAGTGAAAGAGGTATCTCCCA
60.57
GCAAATGTACAGTGGCCAGG
59.47
140
PCR template sequence:
CTGGATAATGCAAAGTGAAAGAGGTATCTCCCATGATGATATTGCTCAACAATCCAAACAATATTGGAGAAGTTTGCAAGCAAGCATGCCGGGAGTGCAGATGTTGCTGCAGATGATGAATGCCGATATCCTGGCCACTGTACATTTGCTTATTGCCAAGAAGAGATAGATGTGTGGACCCTGGAAAGAAAAGGGGCATT
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-1a-3p(1), mmu-miR-206-3p(1), mmu-miR-34c-5p(1), mmu-miR-182-5p(1), mmu-miR-34b-5p(1), mmu-miR-5101(1)
siRNAs for circular RNA silencing
Junction sequence
GCCGGGAGTGCAGATGTTGCTGCAGA
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCZC3H7A_557_ORF_1
0.7668
-0.008329149
0.277954379
405
ORF sequence:
ATGATAAGTAAAAGAAATAAAGATAATTCCACTGCCTGCTCTCACCCCGTCACAAAGCATGAATTTGAGGACAATAAGTGCCTTGTCCACATTTTGAGAGAGACCACAGTAAAATATTCCAAAATACGTTCTTTTCATAAACAATGTCAATTTGATATTTGTCGACATGAAGTTCGTTATGGCTGCGTGAGGGAAGATGAGTGCTTCTATGCCCATAGTCTTATTGAACTGAAAGTCTGGATAATGCAAAGTGAAAGAGGTATCTCCCATGATGATATTGCTCAACAATCCAAACAATATTGGAGAAGTTTGCAAGCAAGCATGCCGGGAGTGCAGATGTTGCTGCAGATGATGAATGCCGATATCCTGGCCACTGTACATTTGCTTATTGCCAAGAAGAGATAG
Peptide sequence:
MISKRNKDNSTACSHPVTKHEFEDNKCLVHILRETTVKYSKIRSFHKQCQFDICRHEVRYGCVREDECFYAHSLIELKVWIMQSERGISHDDIAQQSKQYWRSLQASMPGVQMLLQMMNADILATVHLLIAKKR
IRESfinder result
IRESfinder score
0.599143979
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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