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mmu_circIvns1abp_1011
Basic information of circular RNA
PanCircBase ID:
mmu_circIvns1abp_1011
mm39_Chr. Position ID:
chr1|151225126|151231987|+
Gene name:
Ivns1abp
Transcript:
ENSMUST00000023918.13
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
7
Exon/intron indexes:
2,3,4,5,6,7,8
Exon/intron offsets:
0,1605,2178,2454,4544,5258,6753
Genomic length:
6861
Exon/intron sizes in nt:
2,28,12,91,70,76,17,41,00,000
Flanking exon/introns:
chr1:151220506-151225126|chr1:151231987-151235372
Splice length:
1011
Other database IDs:
circAtlas: mmu-Ivns1abp_0008
circAtlas: hsa-IVNS1ABP_0007
Human Ortholog IDs:
Mature spliced Sequence:
ATTATGATGCATGATTATCACAGAAGAAATTCATGTCTATAGCTTTTAAGGACTTGATTACATCATTTTCAAGCCTGCTAGTTTTGGAACCACCATTAAAGCCTAAGACATCTCCCTTCAGTCAGCCACCTTTCTTCACACTGTAACGAAGTGCTTTGTTTCAACACTCCTTCTTTGTCTTTGGATCATTTGCGTTCTCAGTGACACATTTCTCTTCAGTAATTGTTGCCAAATTTATAAGGAAAAATGATTCCCAATGGATATTTGATGTTTGAAGATGAAAATTTTATTGAATCATCTGTTGCCAAATTAAATGCCTTGAGGAAGAGTGGGCAGTTCTGTGATGTTCGACTTCAGGTCTGTGGCCATGAGATGCTAGCACACAGGGCAGTCCTGGCTTGCTGTAGCCCCTATCTATTTGAAATCTTCAATAGTGACAGTGACCCTCATGGAGTTTCTCATGTGAAGTTGGATGATCTCAATCCAGAAGCTGTTGAAGTCTTGCTGAATTATGCATACACGGCTCAGTTGAAAGCTGATAAGGAATTAGTAAAAGATGTTTATTCTGCAGCCAAGAAGCTGAAGATGGACCGAGTCAAGCAGGTCTGCGGAGATTATTTACTATCTAGAATGGATGTTACTAGCTGCATCTCTTACCGAAATTTTGCAAGTTGTATGGGAGACTCCCGTTTGTTGAATAAAGTTGACGCTTATATTCAGGAGCATTTGTTACAAATTTCAGAAGAGGAGGAATTTCTTAAGCTTCCGAGACTAAAGTTGGAGGTAATGCTTGAAGATAATGTGTGCTTGCCCAGCAATGGCAAGTTGTATACAAAGGTAATCAACTGGGTGCAGCGTAGCATCTGGGAGAATGGAGACAGCCTGGAGGAGCTCATGGAAGAGGTTCAAACCTTGTACTACTCAGCTGATCACAAGCTGCTTGATGGGAACCCACTAGATGGACAGGCTGAGGTGTTTGGCAGTGATGATGACCACATTCAGTTTGTGCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGGACAGGCTGAGGTGTTTG
60.18
TGGTTCCAAAACTAGCAGGCT
59.86
144
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGGACAGGCTGAGGTGTTTG
60.18
GTGGTTCCAAAACTAGCAGGC
59.73
145
PCR template sequence:
CTTGTACTACTCAGCTGATCACAAGCTGCTTGATGGGAACCCACTAGATGGACAGGCTGAGGTGTTTGGCAGTGATGATGACCACATTCAGTTTGTGCAGATTATGATGCATGATTATCACAGAAGAAATTCATGTCTATAGCTTTTAAGGACTTGATTACATCATTTTCAAGCCTGCTAGTTTTGGAACCACCATTAAA
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-30e-5p(1), mmu-miR-122-5p(1), mmu-miR-136-5p(1), mmu-miR-182-5p(1), mmu-miR-207(1), mmu-miR-539-5p(1), mmu-miR-7a-1-3p(1)
siRNAs for circular RNA silencing
Junction sequence
TCAGTTTGTGCAGATTATGATGCATG
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCIVNS1ABP_1011_ORF_1
1.0332
0.144839038
0.954643352
807
ORF sequence:
ATGATTCCCAATGGATATTTGATGTTTGAAGATGAAAATTTTATTGAATCATCTGTTGCCAAATTAAATGCCTTGAGGAAGAGTGGGCAGTTCTGTGATGTTCGACTTCAGGTCTGTGGCCATGAGATGCTAGCACACAGGGCAGTCCTGGCTTGCTGTAGCCCCTATCTATTTGAAATCTTCAATAGTGACAGTGACCCTCATGGAGTTTCTCATGTGAAGTTGGATGATCTCAATCCAGAAGCTGTTGAAGTCTTGCTGAATTATGCATACACGGCTCAGTTGAAAGCTGATAAGGAATTAGTAAAAGATGTTTATTCTGCAGCCAAGAAGCTGAAGATGGACCGAGTCAAGCAGGTCTGCGGAGATTATTTACTATCTAGAATGGATGTTACTAGCTGCATCTCTTACCGAAATTTTGCAAGTTGTATGGGAGACTCCCGTTTGTTGAATAAAGTTGACGCTTATATTCAGGAGCATTTGTTACAAATTTCAGAAGAGGAGGAATTTCTTAAGCTTCCGAGACTAAAGTTGGAGGTAATGCTTGAAGATAATGTGTGCTTGCCCAGCAATGGCAAGTTGTATACAAAGGTAATCAACTGGGTGCAGCGTAGCATCTGGGAGAATGGAGACAGCCTGGAGGAGCTCATGGAAGAGGTTCAAACCTTGTACTACTCAGCTGATCACAAGCTGCTTGATGGGAACCCACTAGATGGACAGGCTGAGGTGTTTGGCAGTGATGATGACCACATTCAGTTTGTGCAGATTATGATGCATGATTATCACAGAAGAAATTCATGTCTATAG
Peptide sequence:
MIPNGYLMFEDENFIESSVAKLNALRKSGQFCDVRLQVCGHEMLAHRAVLACCSPYLFEIFNSDSDPHGVSHVKLDDLNPEAVEVLLNYAYTAQLKADKELVKDVYSAAKKLKMDRVKQVCGDYLLSRMDVTSCISYRNFASCMGDSRLLNKVDAYIQEHLLQISEEEEFLKLPRLKLEVMLEDNVCLPSNGKLYTKVINWVQRSIWENGDSLEELMEEVQTLYYSADHKLLDGNPLDGQAEVFGSDDDHIQFVQIMMHDYHRRNSCL
IRESfinder result
IRESfinder score
0.732118501
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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