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mmu_circPhf21a_996
Basic information of circular RNA
PanCircBase ID:
mmu_circPhf21a_996
mm39_Chr. Position ID:
chr2|92158656|92187364|+
Gene name:
Phf21a
Transcript:
ENSMUST00000044036.15
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
8
Exon/intron indexes:
6,7,8,9,10,11,12,13
Exon/intron offsets:
0,2203,16232,19684,20566,21076,23389,28552
Genomic length:
28708
Exon/intron sizes in nt:
90,29,49,95,28,06,11,60,000
Flanking exon/introns:
chr2:92150804-92158656|chr2:92187364-92189038
Splice length:
996
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
CAGGTTCAAGCAACACCTCCTCAGCCCATCAAAGTACCACAGTTTATCCCTCCTCCTAGACTCACTCCACGCCCAAACTTCCTTCCACAGGTTCGACCCAAGCCTGTGGCCCAGAATAACATTCCTATCGCTCCAGCGCCTCCTCCCATGCTTGCAGCTCCTCAGCTTATCCAGAGGCCTGTCATGCTGACCAAGTTTACACCCACAACCCTCCCCACATCCCAGAATTCCATCCACCCTGTCCGTGTTGTCAATGGACAGACTGCAACCATAGCCAAAACGTTCCCCATGGCCCAGCTCACCAGCATTGTCATAGCTACTCCAGGGACCAGACTCCCTGGACCTCAGACTGTACAGCTTAGCAAACCAAGCCTGGAGAAACAGACAGTTAAATCCCACCCAGAAGCAGAGGAAAAACAAGCAGAGAGCCGTACCGTTACCCCACCTGCTGCACCAAAACCAAAACGAGAAGAGAACCCTCAGAAACTTGCCTTCATGGTGTCTCTAGGGTTGGTAACACATGACCATCTAGAAGAAATCCAAAGCAAGAGGCAGGAAAGAAAGAGAAGAACAACAGCAAACCCGGTGTACAGTGGGGCTGTCTTTGAGCCAGAGCGTAAGAAGAGTGCAGTCACTTACCTTAACAGCACAATGCATCCTGGGACGCGGAAGAGAGGTCGTCCTCCAAAATACAATGCGGTGCTGGGGTTTGGAGCCCTTACCCCAACATCCCCCCCATCCAGTCATCCCGACTCCCCTGAAAATGAAAAGACAGAGACCACATTCACTTTCCCTGCACCTGTTCAGCCTGTGTCTTTGCCCAGCCCCACCTCCACAGACGGTGATATCCATGAGGATTTTTGCAGTGTTTGCAGAAAAAGTGGCCAGTTGCTGATGTGTGACACGTGTTCCCGTGTGTATCATCTGGACTGCTTAGAGCCGCCCCTGAAAACAATTCCCAAGGGCATGTGGATCTGTCCCAGATGTCAGGACCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CTTAGAGCCGCCCCTGAAAA
60.04
GAAGTTTGGGCGTGGAGTGA
60.53
145
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CTTAGAGCCGCCCCTGAAAA
60.04
AAGTTTGGGCGTGGAGTGAG
60.54
144
PCR template sequence:
GTGTGACACGTGTTCCCGTGTGTATCATCTGGACTGCTTAGAGCCGCCCCTGAAAACAATTCCCAAGGGCATGTGGATCTGTCCCAGATGTCAGGACCAGCAGGTTCAAGCAACACCTCCTCAGCCCATCAAAGTACCACAGTTTATCCCTCCTCCTAGACTCACTCCACGCCCAAACTTCCTTCCACAGGTTCGACCCA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
7
Interacting miRNAs (#binding sites)
mmu-miR-19b-3p(1), mmu-miR-33-5p(1), mmu-miR-25-3p(1), mmu-miR-127-3p(1), mmu-miR-377-3p(1), mmu-miR-1198-5p(1), mmu-miR-296-3p(1)
siRNAs for circular RNA silencing
Junction sequence
ATGTCAGGACCAGCAGGTTCAAGCAA
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCPHF21A_996_ORF_1
0.9406
0.156985572
0.999970036
1845
ORF sequence:
ATGCTTGCAGCTCCTCAGCTTATCCAGAGGCCTGTCATGCTGACCAAGTTTACACCCACAACCCTCCCCACATCCCAGAATTCCATCCACCCTGTCCGTGTTGTCAATGGACAGACTGCAACCATAGCCAAAACGTTCCCCATGGCCCAGCTCACCAGCATTGTCATAGCTACTCCAGGGACCAGACTCCCTGGACCTCAGACTGTACAGCTTAGCAAACCAAGCCTGGAGAAACAGACAGTTAAATCCCACCCAGAAGCAGAGGAAAAACAAGCAGAGAGCCGTACCGTTACCCCACCTGCTGCACCAAAACCAAAACGAGAAGAGAACCCTCAGAAACTTGCCTTCATGGTGTCTCTAGGGTTGGTAACACATGACCATCTAGAAGAAATCCAAAGCAAGAGGCAGGAAAGAAAGAGAAGAACAACAGCAAACCCGGTGTACAGTGGGGCTGTCTTTGAGCCAGAGCGTAAGAAGAGTGCAGTCACTTACCTTAACAGCACAATGCATCCTGGGACGCGGAAGAGAGGTCGTCCTCCAAAATACAATGCGGTGCTGGGGTTTGGAGCCCTTACCCCAACATCCCCCCCATCCAGTCATCCCGACTCCCCTGAAAATGAAAAGACAGAGACCACATTCACTTTCCCTGCACCTGTTCAGCCTGTGTCTTTGCCCAGCCCCACCTCCACAGACGGTGATATCCATGAGGATTTTTGCAGTGTTTGCAGAAAAAGTGGCCAGTTGCTGATGTGTGACACGTGTTCCCGTGTGTATCATCTGGACTGCTTAGAGCCGCCCCTGAAAACAATTCCCAAGGGCATGTGGATCTGTCCCAGATGTCAGGACCAGCAGGTTCAAGCAACACCTCCTCAGCCCATCAAAGTACCACAGTTTATCCCTCCTCCTAGACTCACTCCACGCCCAAACTTCCTTCCACAGGTTCGACCCAAGCCTGTGGCCCAGAATAACATTCCTATCGCTCCAGCGCCTCCTCCCATGCTTGCAGCTCCTCAGCTTATCCAGAGGCCTGTCATGCTGACCAAGTTTACACCCACAACCCTCCCCACATCCCAGAATTCCATCCACCCTGTCCGTGTTGTCAATGGACAGACTGCAACCATAGCCAAAACGTTCCCCATGGCCCAGCTCACCAGCATTGTCATAGCTACTCCAGGGACCAGACTCCCTGGACCTCAGACTGTACAGCTTAGCAAACCAAGCCTGGAGAAACAGACAGTTAAATCCCACCCAGAAGCAGAGGAAAAACAAGCAGAGAGCCGTACCGTTACCCCACCTGCTGCACCAAAACCAAAACGAGAAGAGAACCCTCAGAAACTTGCCTTCATGGTGTCTCTAGGGTTGGTAACACATGACCATCTAGAAGAAATCCAAAGCAAGAGGCAGGAAAGAAAGAGAAGAACAACAGCAAACCCGGTGTACAGTGGGGCTGTCTTTGAGCCAGAGCGTAAGAAGAGTGCAGTCACTTACCTTAACAGCACAATGCATCCTGGGACGCGGAAGAGAGGTCGTCCTCCAAAATACAATGCGGTGCTGGGGTTTGGAGCCCTTACCCCAACATCCCCCCCATCCAGTCATCCCGACTCCCCTGAAAATGAAAAGACAGAGACCACATTCACTTTCCCTGCACCTGTTCAGCCTGTGTCTTTGCCCAGCCCCACCTCCACAGACGGTGATATCCATGAGGATTTTTGCAGTGTTTGCAGAAAAAGTGGCCAGTTGCTGATGTGTGACACGTGTTCCCGTGTGTATCATCTGGACTGCTTAGAGCCGCCCCTGAAAACAATTCCCAAGGGCATGTGGATCTGTCCCAGATGTCAGGACCAG
Peptide sequence:
MLAAPQLIQRPVMLTKFTPTTLPTSQNSIHPVRVVNGQTATIAKTFPMAQLTSIVIATPGTRLPGPQTVQLSKPSLEKQTVKSHPEAEEKQAESRTVTPPAAPKPKREENPQKLAFMVSLGLVTHDHLEEIQSKRQERKRRTTANPVYSGAVFEPERKKSAVTYLNSTMHPGTRKRGRPPKYNAVLGFGALTPTSPPSSHPDSPENEKTETTFTFPAPVQPVSLPSPTSTDGDIHEDFCSVCRKSGQLLMCDTCSRVYHLDCLEPPLKTIPKGMWICPRCQDQQVQATPPQPIKVPQFIPPPRLTPRPNFLPQVRPKPVAQNNIPIAPAPPPMLAAPQLIQRPVMLTKFTPTTLPTSQNSIHPVRVVNGQTATIAKTFPMAQLTSIVIATPGTRLPGPQTVQLSKPSLEKQTVKSHPEAEEKQAESRTVTPPAAPKPKREENPQKLAFMVSLGLVTHDHLEEIQSKRQERKRRTTANPVYSGAVFEPERKKSAVTYLNSTMHPGTRKRGRPPKYNAVLGFGALTPTSPPSSHPDSPENEKTETTFTFPAPVQPVSLPSPTSTDGDIHEDFCSVCRKSGQLLMCDTCSRVYHLDCLEPPLKTIPKGMWICPRCQDQ
IRESfinder result
IRESfinder score
0.642622684
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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