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mmu_circCep250_589
Basic information of circular RNA
PanCircBase ID:
mmu_circCep250_589
mm39_Chr. Position ID:
chr2|155803791|155806195|+
Gene name:
Cep250
Transcript:
ENSMUST00000149905.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
2,3,4,5
Exon/intron offsets:
0,1028,1841,2238
Genomic length:
2404
Exon/intron sizes in nt:
2,83,57,83,166
Flanking exon/introns:
chr2:155798582-155803791|chr2:155806195-155806908
Splice length:
589
Other database IDs:
circAtlas: mmu-Cep250_0010
Human Ortholog IDs:
Mature spliced Sequence:
CTCAAGAGGAGGTCTAAGACACGTAGGACAATGGTTAGACACCCTCCTGCAACCAGCCTCTAGCTACACAGGAGCTGCGGATTTGTTCTGTGGTGCGCCCATGGAGACAGGGAGCCCCGGGTTGAACATGAAGCCCCAGTCCTTGCAGCTGGTGCTGGAGGGGCAGGTGCTGGCGCTGCAGCAGCAGATGGCCGAGAATCAGGCTGCCTCCTGGCGGAAACTGAAGAACTCCCAAGAGGCCCAGAAGAGACAAGCAACCCTCGTGAGGAAGCTGCAGGCCAAGGTTTTACAGTACCGGAGCTGGTGTCAAGACCTGGAGAAGCGACTAGAAGCCACTGGGGGGCTGATCCCTCAGCGCTGGGAGAGTGTAGAAGAGCCCAACCTGGAACAGTTGCTGATCCGATTGGAGGAGGAGCAGCAGAGGTGTGAGAGTCTAGTGGAGGTGAACACCGAGCTTCGGCTGCACATGGAGAAAGCCGATGTGGTGAATAAAGCCTTGCAGGAGGACGTGGAAAAACTGACAGTGGACTGGAGTCGGGCCCGAGATGAGTTAGTGAGGAAGGAGAGCCAGTGGCGGATGGAGCAGGAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TAAAGCCTTGCAGGAGGACG
60.04
CTAGAGGCTGGTTGCAGGAG
59.82
163
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GGGCCCGAGATGAGTTAGTG
59.89
CCACAGAACAAATCCGCAGC
60.11
146
PCR template sequence:
TAAAGCCTTGCAGGAGGACGTGGAAAAACTGACAGTGGACTGGAGTCGGGCCCGAGATGAGTTAGTGAGGAAGGAGAGCCAGTGGCGGATGGAGCAGGAGCTCAAGAGGAGGTCTAAGACACGTAGGACAATGGTTAGACACCCTCCTGCAACCAGCCTCTAGCTACACAGGAGCTGCGGATTTGTTCTGTGGTGCGCCC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
8
Interacting miRNAs (#binding sites)
mmu-miR-223-3p(1), mmu-miR-29b-3p(1), mmu-miR-29a-3p(1), mmu-miR-29c-3p(1), mmu-miR-339-5p(1), mmu-miR-149-5p(1), mmu-miR-207(1), mmu-miR-7a-1-3p(1)
siRNAs for circular RNA silencing
Junction sequence
GATGGAGCAGGAGCTCAAGAGGAGGT
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCCEP250_589_ORF_1
1.2207
0.460352886
0.946089809
552
ORF sequence:
ATGGAGACAGGGAGCCCCGGGTTGAACATGAAGCCCCAGTCCTTGCAGCTGGTGCTGGAGGGGCAGGTGCTGGCGCTGCAGCAGCAGATGGCCGAGAATCAGGCTGCCTCCTGGCGGAAACTGAAGAACTCCCAAGAGGCCCAGAAGAGACAAGCAACCCTCGTGAGGAAGCTGCAGGCCAAGGTTTTACAGTACCGGAGCTGGTGTCAAGACCTGGAGAAGCGACTAGAAGCCACTGGGGGGCTGATCCCTCAGCGCTGGGAGAGTGTAGAAGAGCCCAACCTGGAACAGTTGCTGATCCGATTGGAGGAGGAGCAGCAGAGGTGTGAGAGTCTAGTGGAGGTGAACACCGAGCTTCGGCTGCACATGGAGAAAGCCGATGTGGTGAATAAAGCCTTGCAGGAGGACGTGGAAAAACTGACAGTGGACTGGAGTCGGGCCCGAGATGAGTTAGTGAGGAAGGAGAGCCAGTGGCGGATGGAGCAGGAGCTCAAGAGGAGGTCTAAGACACGTAGGACAATGGTTAGACACCCTCCTGCAACCAGCCTCTAG
Peptide sequence:
METGSPGLNMKPQSLQLVLEGQVLALQQQMAENQAASWRKLKNSQEAQKRQATLVRKLQAKVLQYRSWCQDLEKRLEATGGLIPQRWESVEEPNLEQLLIRLEEEQQRCESLVEVNTELRLHMEKADVVNKALQEDVEKLTVDWSRARDELVRKESQWRMEQELKRRSKTRRTMVRHPPATSL
IRESfinder result
IRESfinder score
0.24000641
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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