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mmu_circCep250_1052
Basic information of circular RNA
PanCircBase ID:
mmu_circCep250_1052
mm39_Chr. Position ID:
chr2|155817590|155825336|+
Gene name:
Cep250
Transcript:
ENSMUST00000149905.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
7
Exon/intron indexes:
15,16,17,18,19,20,21
Exon/intron offsets:
0,413,718,3473,4041,5712,7612
Genomic length:
7746
Exon/intron sizes in nt:
19,41,28,17,01,68,13,50,00,000
Flanking exon/introns:
chr2:155816403-155817590|chr2:155825336-155827153
Splice length:
1052
Other database IDs:
circAtlas: mmu-Cep250_0023
Human Ortholog IDs:
Mature spliced Sequence:
GCACATCACCAGCAAGAAACAGCTACAGCTCACCTAGAACAGCTGCATCAGGACGCAGAAAGACAGGAAGAAACACTTGCTAGGGCAGTCCAGGAGAAGGAAGCCCTAGTACGGGAGAGGGCAGCTCTTGAGGTGCGCCTGCAGGCTGTGGAGCGGGACCGACAGGACCTCACTGAACATGTCCTGGGGCTCAGGTCAGCCAAGGAGCAACTGGAGAGCAATCTATTTGAGGCCCAACAGCAAAATTCTGTGATACAGGTCACCAAGGGGCAGCTGGAGGTCCAGATTCAAACTATTATCCAAGCCAAGGAAGTAATTCAAGGGGAAGTGAAATGCCTGAAGCTGGAACTGGATGCTGAGAGGACCCGGGCAGAGCAGGAGTGGGATGCAGTAGCCAGGCAGCTAGCCCAAGCTGAGCAGGAGGGGCAAGCATCTCTGGAGCGACAGAAGGTGGCCCACGAGGAGGAGGTGAACAGGCTGCAAGAGAAATGGGAGAAAGAGCGCTCCTGGCTGCAGCAGGAGCTGGATAAGACCCTGGAAACCCTCGAGAGGGAGAGAGCAGAGCTGGAGACAAAGCTGAGAGAGCAGCAGACAGAAATGGAAGCCATCCGTGCACAGAGGGAAGAGGAACGAAGCCAGGCTGACAGCGCCCTGTATCAAATGCAGCTAGAAACAGAGAAGGAGAGAGTATCCCTCCTGGAGACACTGCTGAGGACCCAGAAGGAGCTGGCAGATGCTAGTCAACAGCTGGAAAGGCTGAGACAGGACATGAAGATTCAGAAGTTAAAGGAACAGGAGACCACTGGCATGCTGCAGGCCCAGCTTCAGGAAACACAGCAGGAGCTGAAGGAGGCAGCCCAGCAGCACAGGGACGACCTTGCTGCCTTCCAGAAGGACAAGCTGGACCTGCAGAAGCAGGTAGAGGACCTAATGTCTCAGCTGGTAGCCCACGATGACTCCCAGAGGCTGGTGAAAGAAGAGATTGAAGAGAAGGTGAAAGTGGCTCAAGAATGCAGCCGGATTCAGAAGGAACTGGAGAAAGAGAACGCCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GCAGCCGGATTCAGAAGGAA
60.39
CCTTCTCCTGGACTGCCCTA
60.33
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ATGCAGCCGGATTCAGAAGG
60.47
CCTTCTCCTGGACTGCCCTA
60.33
142
PCR template sequence:
ATGACTCCCAGAGGCTGGTGAAAGAAGAGATTGAAGAGAAGGTGAAAGTGGCTCAAGAATGCAGCCGGATTCAGAAGGAACTGGAGAAAGAGAACGCCAGGCACATCACCAGCAAGAAACAGCTACAGCTCACCTAGAACAGCTGCATCAGGACGCAGAAAGACAGGAAGAAACACTTGCTAGGGCAGTCCAGGAGAAGG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
9
Interacting miRNAs (#binding sites)
mmu-miR-103-3p(1), 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-370-3p(1), mmu-miR-107-3p(1), mmu-miR-207(1)
siRNAs for circular RNA silencing
Junction sequence
AAGAGAACGCCAGGCACATCACCAGC
siRNA sets
CTGGTGATGTGCCTGGCGT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCCEP250_1052_ORF_1
1.2274
0.481552424
0.998930331
1092
ORF sequence:
ATGCAGCCGGATTCAGAAGGAACTGGAGAAAGAGAACGCCAGGCACATCACCAGCAAGAAACAGCTACAGCTCACCTAGAACAGCTGCATCAGGACGCAGAAAGACAGGAAGAAACACTTGCTAGGGCAGTCCAGGAGAAGGAAGCCCTAGTACGGGAGAGGGCAGCTCTTGAGGTGCGCCTGCAGGCTGTGGAGCGGGACCGACAGGACCTCACTGAACATGTCCTGGGGCTCAGGTCAGCCAAGGAGCAACTGGAGAGCAATCTATTTGAGGCCCAACAGCAAAATTCTGTGATACAGGTCACCAAGGGGCAGCTGGAGGTCCAGATTCAAACTATTATCCAAGCCAAGGAAGTAATTCAAGGGGAAGTGAAATGCCTGAAGCTGGAACTGGATGCTGAGAGGACCCGGGCAGAGCAGGAGTGGGATGCAGTAGCCAGGCAGCTAGCCCAAGCTGAGCAGGAGGGGCAAGCATCTCTGGAGCGACAGAAGGTGGCCCACGAGGAGGAGGTGAACAGGCTGCAAGAGAAATGGGAGAAAGAGCGCTCCTGGCTGCAGCAGGAGCTGGATAAGACCCTGGAAACCCTCGAGAGGGAGAGAGCAGAGCTGGAGACAAAGCTGAGAGAGCAGCAGACAGAAATGGAAGCCATCCGTGCACAGAGGGAAGAGGAACGAAGCCAGGCTGACAGCGCCCTGTATCAAATGCAGCTAGAAACAGAGAAGGAGAGAGTATCCCTCCTGGAGACACTGCTGAGGACCCAGAAGGAGCTGGCAGATGCTAGTCAACAGCTGGAAAGGCTGAGACAGGACATGAAGATTCAGAAGTTAAAGGAACAGGAGACCACTGGCATGCTGCAGGCCCAGCTTCAGGAAACACAGCAGGAGCTGAAGGAGGCAGCCCAGCAGCACAGGGACGACCTTGCTGCCTTCCAGAAGGACAAGCTGGACCTGCAGAAGCAGGTAGAGGACCTAATGTCTCAGCTGGTAGCCCACGATGACTCCCAGAGGCTGGTGAAAGAAGAGATTGAAGAGAAGGTGAAAGTGGCTCAAGAATGCAGCCGGATTCAGAAGGAACTGGAGAAAGAGAACGCC
Peptide sequence:
MQPDSEGTGERERQAHHQQETATAHLEQLHQDAERQEETLARAVQEKEALVRERAALEVRLQAVERDRQDLTEHVLGLRSAKEQLESNLFEAQQQNSVIQVTKGQLEVQIQTIIQAKEVIQGEVKCLKLELDAERTRAEQEWDAVARQLAQAEQEGQASLERQKVAHEEEVNRLQEKWEKERSWLQQELDKTLETLERERAELETKLREQQTEMEAIRAQREEERSQADSALYQMQLETEKERVSLLETLLRTQKELADASQQLERLRQDMKIQKLKEQETTGMLQAQLQETQQELKEAAQQHRDDLAAFQKDKLDLQKQVEDLMSQLVAHDDSQRLVKEEIEEKVKVAQECSRIQKELEKENA
IRESfinder result
IRESfinder score
0.258057445
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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