top of page
mmu_circCep250_1176
Basic information of circular RNA
PanCircBase ID:
mmu_circCep250_1176
mm39_Chr. Position ID:
chr2|155815262|155821766|+
Gene name:
Cep250
Transcript:
ENSMUST00000149905.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
7
Exon/intron indexes:
13,14,15,16,17,18,19
Exon/intron offsets:
0,907,2328,2741,3046,5801,6369
Genomic length:
6504
Exon/intron sizes in nt:
14,72,34,19,41,28,17,00,00,000
Flanking exon/introns:
chr2:155814012-155815262|chr2:155821766-155823302
Splice length:
1176
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GCAGAACAGTCCATTGTGGAGCTGTCAGGTTCTGAGAACAGCCTGAAGGCAGAGGTAGCTGATCTTCGAGCTGCAGCTGTCAAGCTTGGGGCCTTAAACGAGGCTTTGGCTTTAGATAAAGTTGAACTGAACCAGCAGCTTCTCCAGTAGTTGGAGCAGGAGAACCAGTCTCTATGCAGCAGAGTGGAGGCCGCAGAGCAGCTGAGAAGCGCTTTGCAGGTGGACCTGGCGGAGGCAGAAAGGCGCAGGGAAGCCCTGTGGGAGAAGAAAACTCAGCTGGAGACTCAGCTGCAGAAGGCAGAGGAAGCGGGGGCTGAGCTACAGGCAGAGCTGAGGGGCACCCGAGAAGAAAAGGAAGAGCTTAAAGATAAATTAAGTGAGGCACATCACCAGCAAGAAACAGCTACAGCTCACCTAGAACAGCTGCATCAGGACGCAGAAAGACAGGAAGAAACACTTGCTAGGGCAGTCCAGGAGAAGGAAGCCCTAGTACGGGAGAGGGCAGCTCTTGAGGTGCGCCTGCAGGCTGTGGAGCGGGACCGACAGGACCTCACTGAACATGTCCTGGGGCTCAGGTCAGCCAAGGAGCAACTGGAGAGCAATCTATTTGAGGCCCAACAGCAAAATTCTGTGATACAGGTCACCAAGGGGCAGCTGGAGGTCCAGATTCAAACTATTATCCAAGCCAAGGAAGTAATTCAAGGGGAAGTGAAATGCCTGAAGCTGGAACTGGATGCTGAGAGGACCCGGGCAGAGCAGGAGTGGGATGCAGTAGCCAGGCAGCTAGCCCAAGCTGAGCAGGAGGGGCAAGCATCTCTGGAGCGACAGAAGGTGGCCCACGAGGAGGAGGTGAACAGGCTGCAAGAGAAATGGGAGAAAGAGCGCTCCTGGCTGCAGCAGGAGCTGGATAAGACCCTGGAAACCCTCGAGAGGGAGAGAGCAGAGCTGGAGACAAAGCTGAGAGAGCAGCAGACAGAAATGGAAGCCATCCGTGCACAGAGGGAAGAGGAACGAAGCCAGGCTGACAGCGCCCTGTATCAAATGCAGCTAGAAACAGAGAAGGAGAGAGTATCCCTCCTGGAGACACTGCTGAGGACCCAGAAGGAGCTGGCAGATGCTAGTCAACAGCTGGAAAGGCTGAGACAGGACATGAAGATTCAGAAGTTAAAGGAACAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CACTGCTGAGGACCCAGAAG
60.04
CAGCTACCTCTGCCTTCAGG
59.82
153
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AGCTGGAAAGGCTGAGACAG
59.68
TAAGGCCCCAAGCTTGACAG
59.96
146
PCR template sequence:
CCTGGAGACACTGCTGAGGACCCAGAAGGAGCTGGCAGATGCTAGTCAACAGCTGGAAAGGCTGAGACAGGACATGAAGATTCAGAAGTTAAAGGAACAGGCAGAACAGTCCATTGTGGAGCTGTCAGGTTCTGAGAACAGCCTGAAGGCAGAGGTAGCTGATCTTCGAGCTGCAGCTGTCAAGCTTGGGGCCTTAAACG
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-207(2), mmu-miR-135a-5p(1), mmu-miR-324-5p(1), mmu-miR-138-5p(1), mmu-miR-676-3p(1), mmu-miR-22-3p(1), mmu-miR-1199-5p(1)
siRNAs for circular RNA silencing
Junction sequence
GTTAAAGGAACAGGCAGAACAGTCCA
siRNA sets
GACTGTTCTGCCTGTTCCT, TTCTGCCTGTTCCTTTAAC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCCEP250_1176_ORF_1
1.2352
0.397471016
0.756821067
348
ORF sequence:
ATGGAAGCCATCCGTGCACAGAGGGAAGAGGAACGAAGCCAGGCTGACAGCGCCCTGTATCAAATGCAGCTAGAAACAGAGAAGGAGAGAGTATCCCTCCTGGAGACACTGCTGAGGACCCAGAAGGAGCTGGCAGATGCTAGTCAACAGCTGGAAAGGCTGAGACAGGACATGAAGATTCAGAAGTTAAAGGAACAGGCAGAACAGTCCATTGTGGAGCTGTCAGGTTCTGAGAACAGCCTGAAGGCAGAGGTAGCTGATCTTCGAGCTGCAGCTGTCAAGCTTGGGGCCTTAAACGAGGCTTTGGCTTTAGATAAAGTTGAACTGAACCAGCAGCTTCTCCAGTAG
Peptide sequence:
MEAIRAQREEERSQADSALYQMQLETEKERVSLLETLLRTQKELADASQQLERLRQDMKIQKLKEQAEQSIVELSGSENSLKAEVADLRAAAVKLGALNEALALDKVELNQQLLQ
IRESfinder result
IRESfinder score
0.327888548
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
bottom of page