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mmu_circMtf2_1223
Basic information of circular RNA
PanCircBase ID:
mmu_circMtf2_1223
mm39_Chr. Position ID:
chr5|108221172|108248849|+
Gene name:
Mtf2
Transcript:
ENSMUST00000131291.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
12
Exon/intron indexes:
2,3,4,5,6,7,8,9,10,11,12,13
Exon/intron offsets:
0,7518,7615,7830,13692,13989,14634,18754,20031,20818,25812,27506
Genomic length:
27677
Exon/intron sizes in nt:
1,48,17,10,28,29,61,01,00,00,00,00,00,00,000
Flanking exon/introns:
chr5:108213831-108221172|chr5:108248849-108251885
Splice length:
1223
Other database IDs:
circAtlas: mmu-Mtf2_0017
Human Ortholog IDs:
Mature spliced Sequence:
CTGCCGAGTGTTTCATCATGGACTAGAGTAGTGGCAAGGGTACTGGAAACGTGATTGTGGTGGAGGTGTCATGGCTGATTGCTGTTACCAGAGAAGAGGAGGGAAATTGGAGCGGCACAATAGAGGGATGAAAGTTCCTACTAGGGAGAGACTCTACAGGAGCAGGATGGACATAAAGCCAAAAAACCAGCATGTAAATTTGAAGAGGGTCAAGATGTCTTAGCTAGATGGTCAGATGGCTTGTTTTATCTTGGAACTATCAAAAAGATAAACATATTGAAACAGAGCTGCTTCATCATATTTGAGGACAGTTCCAAATCCTGGGTTCTCTGGAAGGACATCCAAACAGGAGCCACTGGGAGTGGGGAAATGGTCTGTACAATATGTCAAGAAGAGTATTCAGAAGCTCCCAATGAAATGGTTATATGTGATAAGTGTGGTCAAGGATATCATCAGCTGTGTCACACACCTCATATTGACTCGAGTGTGATTGATTCAGATGAAAAGTGGCTTTGTCGACAGTGCGTTTTTGCAACAACTACAAAGAGGGGTGGTGCGCTTAAGAAAGGACCAAATGCCAAAGCATTGCAAGTCATGAAGCAGACATTACCCTATAGTGTGGCTGACCTTGAATGGGATGCAGGCCATAAAACCAATGTCCAGCAGTGCTACTGCTATTGTGGAGGCCCTGGAGACTGGTATTTAAAGATGCTGCAGTGCTGCAAATGTAAGCAGTGGTTTCATGAAGCTTGTGTCCAATGCCTTCAGAAGCCAATGCTGTTTGGAGATAGGTTTTATACATTTATTTGCTCTGTCTGCAGTTCTGGACCAGAATACCTCAAACGTCTACCGTTACAGTGGGTAGATATAGCACACCTATGCCTTTACAACCTAAGTGTTATTCACAAGAAGAAATACTTTGATTCTGAACTTGAGCTTATGACATACATTAATGAAAACTGGGATAGATTGCACCCTGGAGAGCTGGCAGACACACCCAAATCTGAAAGATATGAGCATGTTCTGGAGGCATTAAATGATTACAAGACCATGTTTATGTCTGGGAAAGAAATAAAGAAGAAGAAGCATTTGTTTGGGTTGCGAATTCGTGTTCCTCCTGTGCCACCAAATGTGGCTTTCAAAGCAGAGAAAGAACCAGAAGGAACATCCCATGAATTTAAAATTAAAGGCAGAAAGGCATCCAAACCTACATCTGACTCAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ACCAGAAGGAACATCCCATGA
58.72
CCATGACACCTCCACCACAA
59.89
143
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AGAACCAGAAGGAACATCCCA
58.65
CCATGACACCTCCACCACAA
59.89
146
PCR template sequence:
CACCAAATGTGGCTTTCAAAGCAGAGAAAGAACCAGAAGGAACATCCCATGAATTTAAAATTAAAGGCAGAAAGGCATCCAAACCTACATCTGACTCAAGCTGCCGAGTGTTTCATCATGGACTAGAGTAGTGGCAAGGGTACTGGAAACGTGATTGTGGTGGAGGTGTCATGGCTGATTGCTGTTACCAGAGAAGAGGA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
12
Interacting miRNAs (#binding sites)
mmu-miR-103-3p(1), mmu-miR-433-3p(1), mmu-miR-199b-3p(1), mmu-miR-194-5p(1), mmu-miR-199a-3p(1), mmu-miR-425-5p(1), mmu-miR-107-3p(1), mmu-miR-344d-3p(1), mmu-miR-335-3p(1), mmu-miR-697(1), mmu-miR-1904(1), mmu-miR-3105-3p(1)
siRNAs for circular RNA silencing
Junction sequence
CATCTGACTCAAGCTGCCGAGTGTTT
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCMTF2_1223_ORF_1
0.8888
0.014256354
0.942530513
885
ORF sequence:
ATGGTCTGTACAATATGTCAAGAAGAGTATTCAGAAGCTCCCAATGAAATGGTTATATGTGATAAGTGTGGTCAAGGATATCATCAGCTGTGTCACACACCTCATATTGACTCGAGTGTGATTGATTCAGATGAAAAGTGGCTTTGTCGACAGTGCGTTTTTGCAACAACTACAAAGAGGGGTGGTGCGCTTAAGAAAGGACCAAATGCCAAAGCATTGCAAGTCATGAAGCAGACATTACCCTATAGTGTGGCTGACCTTGAATGGGATGCAGGCCATAAAACCAATGTCCAGCAGTGCTACTGCTATTGTGGAGGCCCTGGAGACTGGTATTTAAAGATGCTGCAGTGCTGCAAATGTAAGCAGTGGTTTCATGAAGCTTGTGTCCAATGCCTTCAGAAGCCAATGCTGTTTGGAGATAGGTTTTATACATTTATTTGCTCTGTCTGCAGTTCTGGACCAGAATACCTCAAACGTCTACCGTTACAGTGGGTAGATATAGCACACCTATGCCTTTACAACCTAAGTGTTATTCACAAGAAGAAATACTTTGATTCTGAACTTGAGCTTATGACATACATTAATGAAAACTGGGATAGATTGCACCCTGGAGAGCTGGCAGACACACCCAAATCTGAAAGATATGAGCATGTTCTGGAGGCATTAAATGATTACAAGACCATGTTTATGTCTGGGAAAGAAATAAAGAAGAAGAAGCATTTGTTTGGGTTGCGAATTCGTGTTCCTCCTGTGCCACCAAATGTGGCTTTCAAAGCAGAGAAAGAACCAGAAGGAACATCCCATGAATTTAAAATTAAAGGCAGAAAGGCATCCAAACCTACATCTGACTCAAGCTGCCGAGTGTTTCATCATGGACTAGAGTAG
Peptide sequence:
MVCTICQEEYSEAPNEMVICDKCGQGYHQLCHTPHIDSSVIDSDEKWLCRQCVFATTTKRGGALKKGPNAKALQVMKQTLPYSVADLEWDAGHKTNVQQCYCYCGGPGDWYLKMLQCCKCKQWFHEACVQCLQKPMLFGDRFYTFICSVCSSGPEYLKRLPLQWVDIAHLCLYNLSVIHKKKYFDSELELMTYINENWDRLHPGELADTPKSERYEHVLEALNDYKTMFMSGKEIKKKKHLFGLRIRVPPVPPNVAFKAEKEPEGTSHEFKIKGRKASKPTSDSSCRVFHHGLE
IRESfinder result
IRESfinder score
0.591364851
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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