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mmu_circZfc3h1_798
Basic information of circular RNA
PanCircBase ID:
mmu_circZfc3h1_798
mm39_Chr. Position ID:
chr10|115252643|115256784|+
Gene name:
Zfc3h1
Transcript:
ENSMUST00000036044.9
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
21,22,23,24
Exon/intron offsets:
0,1903,3033,3903
Genomic length:
4141
Exon/intron sizes in nt:
1,84,18,71,89,238
Flanking exon/introns:
chr10:115251644-115252643|chr10:115256784-115259109
Splice length:
798
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
CCTTCCGACCAGAGAAGCAAATAAATGTCCCAGCTCTGGACACCGTTGTCACTCCAGACGATGTTAGATATTTTACCAGTGAAACTGATGACATTGCTAACTTAGAAGCAAGTGTACTGGAAAATCCATCCCATGTACAACTTTGGCTCAAGCTTGCGTACAAGTACTTGAATCAAAATGAGGGGCTGTGTTCAGAATCTTTGGACTCTGCTTTAAATGTACTGGCTCGAGCTCTGGAAAACAATAAAGACAATCCAGAAATTTGGTGCCATTACCTCAGATTGTTCTCAAAAAGAGGGACCAAGGAGGAGGTGCAGGAAATGTGTGAAACAGCTGTTGAGTATGCTCCTGACTATCAAAGCTTTTGGACTTTTTTGCACCTAGAAAGCACCTTTGAAGAAAAGGATTATGTGTGTGAGAGGATGGTGGAGTTTCTGATGGGAGCGGCCAAGCGGGAAATATCAGATATTCTGTCCTTTCAGCTTTTAGAGGCTCTTTTGTTTAGAGTTCAGCTACATATATTTACTGGGAGATGCCAAAGTGCACTTGCAGTTTTACAGAATGCATTAAAATTGGCTAATGATGCAATAGTAGCTGAGTACCTTAAGACAGATGATCGGTGTCTGGCATGGCTGGCCTACATACATCTTATTGAATTCAATAGTCTCCCTTCAAAACTTTATGATCCATCTAATGCTAATCCTTCAAGAATTGTTAACACAGAACCGTTTGTAATGCCATGGCAAGCAGCTCAAGATGTCAAGACCAATCCTGACTTATTGTTAGCAGTGTTTGAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ACACAGAACCGTTTGTAATGCC
59.71
GTCTGGAGTGACAACGGTGT
59.9
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CACAGAACCGTTTGTAATGCCA
59.71
ATCGTCTGGAGTGACAACGG
59.76
142
PCR template sequence:
AATCCTTCAAGAATTGTTAACACAGAACCGTTTGTAATGCCATGGCAAGCAGCTCAAGATGTCAAGACCAATCCTGACTTATTGTTAGCAGTGTTTGAAGCCTTCCGACCAGAGAAGCAAATAAATGTCCCAGCTCTGGACACCGTTGTCACTCCAGACGATGTTAGATATTTTACCAGTGAAACTGATGACATTGCTAA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
11
Interacting miRNAs (#binding sites)
mmu-miR-200a-3p(1), mmu-miR-141-3p(1), mmu-miR-19b-3p(1), mmu-miR-19a-3p(1), mmu-miR-18a-5p(1), mmu-miR-320-3p(1), mmu-miR-382-5p(1), mmu-miR-297a-5p(1), mmu-miR-342-3p(1), mmu-miR-377-3p(1), mmu-miR-5101(1)
siRNAs for circular RNA silencing
Junction sequence
GCAGTGTTTGAAGCCTTCCGACCAGA
siRNA sets
GGAAGGCTTCAAACACTGC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCZFC3H1_798_ORF_1
0.9868
-0.000836243
0.996833923
1275
ORF sequence:
ATGTGTGAAACAGCTGTTGAGTATGCTCCTGACTATCAAAGCTTTTGGACTTTTTTGCACCTAGAAAGCACCTTTGAAGAAAAGGATTATGTGTGTGAGAGGATGGTGGAGTTTCTGATGGGAGCGGCCAAGCGGGAAATATCAGATATTCTGTCCTTTCAGCTTTTAGAGGCTCTTTTGTTTAGAGTTCAGCTACATATATTTACTGGGAGATGCCAAAGTGCACTTGCAGTTTTACAGAATGCATTAAAATTGGCTAATGATGCAATAGTAGCTGAGTACCTTAAGACAGATGATCGGTGTCTGGCATGGCTGGCCTACATACATCTTATTGAATTCAATAGTCTCCCTTCAAAACTTTATGATCCATCTAATGCTAATCCTTCAAGAATTGTTAACACAGAACCGTTTGTAATGCCATGGCAAGCAGCTCAAGATGTCAAGACCAATCCTGACTTATTGTTAGCAGTGTTTGAAGCCTTCCGACCAGAGAAGCAAATAAATGTCCCAGCTCTGGACACCGTTGTCACTCCAGACGATGTTAGATATTTTACCAGTGAAACTGATGACATTGCTAACTTAGAAGCAAGTGTACTGGAAAATCCATCCCATGTACAACTTTGGCTCAAGCTTGCGTACAAGTACTTGAATCAAAATGAGGGGCTGTGTTCAGAATCTTTGGACTCTGCTTTAAATGTACTGGCTCGAGCTCTGGAAAACAATAAAGACAATCCAGAAATTTGGTGCCATTACCTCAGATTGTTCTCAAAAAGAGGGACCAAGGAGGAGGTGCAGGAAATGTGTGAAACAGCTGTTGAGTATGCTCCTGACTATCAAAGCTTTTGGACTTTTTTGCACCTAGAAAGCACCTTTGAAGAAAAGGATTATGTGTGTGAGAGGATGGTGGAGTTTCTGATGGGAGCGGCCAAGCGGGAAATATCAGATATTCTGTCCTTTCAGCTTTTAGAGGCTCTTTTGTTTAGAGTTCAGCTACATATATTTACTGGGAGATGCCAAAGTGCACTTGCAGTTTTACAGAATGCATTAAAATTGGCTAATGATGCAATAGTAGCTGAGTACCTTAAGACAGATGATCGGTGTCTGGCATGGCTGGCCTACATACATCTTATTGAATTCAATAGTCTCCCTTCAAAACTTTATGATCCATCTAATGCTAATCCTTCAAGAATTGTTAACACAGAACCGTTTGTAATGCCATGGCAAGCAGCTCAAGATGTCAAGACCAATCCTGACTTATTGTTAGCAGTGTTTGAA
Peptide sequence:
MCETAVEYAPDYQSFWTFLHLESTFEEKDYVCERMVEFLMGAAKREISDILSFQLLEALLFRVQLHIFTGRCQSALAVLQNALKLANDAIVAEYLKTDDRCLAWLAYIHLIEFNSLPSKLYDPSNANPSRIVNTEPFVMPWQAAQDVKTNPDLLLAVFEAFRPEKQINVPALDTVVTPDDVRYFTSETDDIANLEASVLENPSHVQLWLKLAYKYLNQNEGLCSESLDSALNVLARALENNKDNPEIWCHYLRLFSKRGTKEEVQEMCETAVEYAPDYQSFWTFLHLESTFEEKDYVCERMVEFLMGAAKREISDILSFQLLEALLFRVQLHIFTGRCQSALAVLQNALKLANDAIVAEYLKTDDRCLAWLAYIHLIEFNSLPSKLYDPSNANPSRIVNTEPFVMPWQAAQDVKTNPDLLLAVFE
IRESfinder result
IRESfinder score
0.633884867
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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