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mmu_circZc3h7a_642
Basic information of circular RNA
PanCircBase ID:
mmu_circZc3h7a_642
mm39_Chr. Position ID:
chr16|10965132|10968620|-
Gene name:
Zc3h7a
Transcript:
ENSMUST00000037633.16
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
16,15,14,13
Exon/intron offsets:
0,1176,1942,3326
Genomic length:
3488
Exon/intron sizes in nt:
1,82,10,11,97,162
Flanking exon/introns:
chr16:10964307-10965132|chr16:10968620-10969002
Splice length:
642
Other database IDs:
circAtlas: hsa-SCAF8_0001
Human Ortholog IDs:
Mature spliced Sequence:
GCCCTAAGTTAATGGATTTCACATACCATGCTAATGTAGATCATAAATGTAAGAAAGATATTTTAATTGGTAGGATAAAAAATGTTGAAGATAAATCATGGAAAAAAATACGTCCAAGACCAACAAAAACAAATTATGAAGGACCATATTATATATGCAAAGATGTTGCTGCAGATGATGAATGCCGATATCCTGGCCACTGTACATTTGCTTATTGCCAAGAAGAGATAGATGTGTGGACCCTGGAAAGAAAAGGGGCATTCAGTCGAGAGGCTTTCTTTGGGGGCAATGGAAAGATCAACCTTACTGTGGTCAGAATTCTCCAAGAGCATCATGGAGAGTTTACATTCCTTTGTGAGAAATGTTTTGATCATAAACCTAGAATGATAAGTAAAAGAAATAAAGATAATTCCACTGCCTGCTCTCACCCCGTCACAAAGCATGAATTTGAGGACAATAAGTGCCTTGTCCACATTTTGAGAGAGACCACAGTAAAATATTCCAAAATACGTTCTTTTCATAAACAATGTCAATTTGATATTTGTCGACATGAAGTTCGTTATGGCTGCGTGAGGGAAGATGAGTGCTTCTATGCCCATAGTCTTATTGAACTGAAAGTCTGGATAATGCAAAGTGAAAGAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AAGTTCGTTATGGCTGCGTG
59.2
ACATTTATGATCTACATTAGCATGGT
56.84
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TCGACATGAAGTTCGTTATGGC
59.07
TGATCTACATTAGCATGGTATGTGA
57.7
141
PCR template sequence:
TGTCGACATGAAGTTCGTTATGGCTGCGTGAGGGAAGATGAGTGCTTCTATGCCCATAGTCTTATTGAACTGAAAGTCTGGATAATGCAAAGTGAAAGAGGCCCTAAGTTAATGGATTTCACATACCATGCTAATGTAGATCATAAATGTAAGAAAGATATTTTAATTGGTAGGATAAAAAATGTTGAAGATAAATCATG
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-1a-3p(1), mmu-miR-206-3p(1), mmu-miR-34c-5p(1), mmu-miR-182-5p(1), mmu-miR-34b-5p(1)
siRNAs for circular RNA silencing
Junction sequence
CAAAGTGAAAGAGGCCCTAAGTTAAT
siRNA sets
TAACTTAGGGCCTCTTTCA, TTAACTTAGGGCCTCTTTC, AACTTAGGGCCTCTTTCAC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCZC3H7A_642_ORF_1
0.9168
-0.065160952
0.995248623
1272
ORF sequence:
ATGGATTTCACATACCATGCTAATGTAGATCATAAATGTAAGAAAGATATTTTAATTGGTAGGATAAAAAATGTTGAAGATAAATCATGGAAAAAAATACGTCCAAGACCAACAAAAACAAATTATGAAGGACCATATTATATATGCAAAGATGTTGCTGCAGATGATGAATGCCGATATCCTGGCCACTGTACATTTGCTTATTGCCAAGAAGAGATAGATGTGTGGACCCTGGAAAGAAAAGGGGCATTCAGTCGAGAGGCTTTCTTTGGGGGCAATGGAAAGATCAACCTTACTGTGGTCAGAATTCTCCAAGAGCATCATGGAGAGTTTACATTCCTTTGTGAGAAATGTTTTGATCATAAACCTAGAATGATAAGTAAAAGAAATAAAGATAATTCCACTGCCTGCTCTCACCCCGTCACAAAGCATGAATTTGAGGACAATAAGTGCCTTGTCCACATTTTGAGAGAGACCACAGTAAAATATTCCAAAATACGTTCTTTTCATAAACAATGTCAATTTGATATTTGTCGACATGAAGTTCGTTATGGCTGCGTGAGGGAAGATGAGTGCTTCTATGCCCATAGTCTTATTGAACTGAAAGTCTGGATAATGCAAAGTGAAAGAGGCCCTAAGTTAATGGATTTCACATACCATGCTAATGTAGATCATAAATGTAAGAAAGATATTTTAATTGGTAGGATAAAAAATGTTGAAGATAAATCATGGAAAAAAATACGTCCAAGACCAACAAAAACAAATTATGAAGGACCATATTATATATGCAAAGATGTTGCTGCAGATGATGAATGCCGATATCCTGGCCACTGTACATTTGCTTATTGCCAAGAAGAGATAGATGTGTGGACCCTGGAAAGAAAAGGGGCATTCAGTCGAGAGGCTTTCTTTGGGGGCAATGGAAAGATCAACCTTACTGTGGTCAGAATTCTCCAAGAGCATCATGGAGAGTTTACATTCCTTTGTGAGAAATGTTTTGATCATAAACCTAGAATGATAAGTAAAAGAAATAAAGATAATTCCACTGCCTGCTCTCACCCCGTCACAAAGCATGAATTTGAGGACAATAAGTGCCTTGTCCACATTTTGAGAGAGACCACAGTAAAATATTCCAAAATACGTTCTTTTCATAAACAATGTCAATTTGATATTTGTCGACATGAAGTTCGTTATGGCTGCGTGAGGGAAGATGAGTGCTTCTATGCCCATAGTCTTATTGAACTGAAAGTCTGGATAATGCAAAGTGAAAGA
Peptide sequence:
MDFTYHANVDHKCKKDILIGRIKNVEDKSWKKIRPRPTKTNYEGPYYICKDVAADDECRYPGHCTFAYCQEEIDVWTLERKGAFSREAFFGGNGKINLTVVRILQEHHGEFTFLCEKCFDHKPRMISKRNKDNSTACSHPVTKHEFEDNKCLVHILRETTVKYSKIRSFHKQCQFDICRHEVRYGCVREDECFYAHSLIELKVWIMQSERGPKLMDFTYHANVDHKCKKDILIGRIKNVEDKSWKKIRPRPTKTNYEGPYYICKDVAADDECRYPGHCTFAYCQEEIDVWTLERKGAFSREAFFGGNGKINLTVVRILQEHHGEFTFLCEKCFDHKPRMISKRNKDNSTACSHPVTKHEFEDNKCLVHILRETTVKYSKIRSFHKQCQFDICRHEVRYGCVREDECFYAHSLIELKVWIMQSER
IRESfinder result
IRESfinder score
0.634300701
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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