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mmu_circIvns1abp_1138
Basic information of circular RNA
PanCircBase ID:
mmu_circIvns1abp_1138
mm39_Chr. Position ID:
chr1|151226731|151235928|+
Gene name:
Ivns1abp
Transcript:
ENSMUST00000023918.13
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
8
Exon/intron indexes:
3,4,5,6,7,8,9,10
Exon/intron offsets:
0,573,849,2939,3653,5148,8641,8972
Genomic length:
9197
Exon/intron sizes in nt:
12,91,70,76,17,41,26,10,00,00,000
Flanking exon/introns:
chr1:151225354-151226731|chr1:151235928-151236468
Splice length:
1138
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
CCAAATTTATAAGGAAAAATGATTCCCAATGGATATTTGATGTTTGAAGATGAAAATTTTATTGAATCATCTGTTGCCAAATTAAATGCCTTGAGGAAGAGTGGGCAGTTCTGTGATGTTCGACTTCAGGTCTGTGGCCATGAGATGCTAGCACACAGGGCAGTCCTGGCTTGCTGTAGCCCCTATCTATTTGAAATCTTCAATAGTGACAGTGACCCTCATGGAGTTTCTCATGTGAAGTTGGATGATCTCAATCCAGAAGCTGTTGAAGTCTTGCTGAATTATGCATACACGGCTCAGTTGAAAGCTGATAAGGAATTAGTAAAAGATGTTTATTCTGCAGCCAAGAAGCTGAAGATGGACCGAGTCAAGCAGGTCTGCGGAGATTATTTACTATCTAGAATGGATGTTACTAGCTGCATCTCTTACCGAAATTTTGCAAGTTGTATGGGAGACTCCCGTTTGTTGAATAAAGTTGACGCTTATATTCAGGAGCATTTGTTACAAATTTCAGAAGAGGAGGAATTTCTTAAGCTTCCGAGACTAAAGTTGGAGGTAATGCTTGAAGATAATGTGTGCTTGCCCAGCAATGGCAAGTTGTATACAAAGGTAATCAACTGGGTGCAGCGTAGCATCTGGGAGAATGGAGACAGCCTGGAGGAGCTCATGGAAGAGGTTCAAACCTTGTACTACTCAGCTGATCACAAGCTGCTTGATGGGAACCCACTAGATGGACAGGCTGAGGTGTTTGGCAGTGATGATGACCACATTCAGTTTGTGCAGAAAAAGCCACCCCGTGAGAATGGCCATAAGCAGATAAGTGGCAGTTCCACTGGATGTCTCTCTTCTCCAAATGCTTCAATGCAAAGCCCTAAGCATGAGTGGAAAATCGTTGCTTCAGAAAAGACTTCAAATAACACTTACTTGTGCCTGGCTGTGCTGGACAGTACATTCTGTGTCATTTTCCTTCATGGGCGGAACAGTCCACAGAGCTCACCAACAAGTACTCCAAAACTGAGCAAGAGTTTAAGCTTCGAGATGCAACCAGATGAGCTTCTAGAAAAGCCCATGTCTCCCATGCAGTACGCACGGTCTGGACTAGGGACAGCAGAGATGAATGGCAAACTCATAGCTGCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GTACGCACGGTCTGGACTAG
59.9
TCCTCAAGGCATTTAATTTGGCA
59.16
153
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ATGTCTCCCATGCAGTACGC
60.18
TCCTCAAGGCATTTAATTTGGCA
59.16
167
PCR template sequence:
ATGCAACCAGATGAGCTTCTAGAAAAGCCCATGTCTCCCATGCAGTACGCACGGTCTGGACTAGGGACAGCAGAGATGAATGGCAAACTCATAGCTGCAGCCAAATTTATAAGGAAAAATGATTCCCAATGGATATTTGATGTTTGAAGATGAAAATTTTATTGAATCATCTGTTGCCAAATTAAATGCCTTGAGGAAGA
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-33-5p(1), mmu-miR-136-5p(1), mmu-miR-182-5p(1), mmu-miR-207(1), mmu-miR-3105-3p(1), mmu-miR-7a-1-3p(1)
siRNAs for circular RNA silencing
Junction sequence
CTCATAGCTGCAGCCAAATTTATAAG
siRNA sets
TATAAATTTGGCTGCAGCT, TTATAAATTTGGCTGCAGC, CTTATAAATTTGGCTGCAG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCIVNS1ABP_1138_ORF_1
0.916
0.136865693
0.995450444
1167
ORF sequence:
ATGATTCCCAATGGATATTTGATGTTTGAAGATGAAAATTTTATTGAATCATCTGTTGCCAAATTAAATGCCTTGAGGAAGAGTGGGCAGTTCTGTGATGTTCGACTTCAGGTCTGTGGCCATGAGATGCTAGCACACAGGGCAGTCCTGGCTTGCTGTAGCCCCTATCTATTTGAAATCTTCAATAGTGACAGTGACCCTCATGGAGTTTCTCATGTGAAGTTGGATGATCTCAATCCAGAAGCTGTTGAAGTCTTGCTGAATTATGCATACACGGCTCAGTTGAAAGCTGATAAGGAATTAGTAAAAGATGTTTATTCTGCAGCCAAGAAGCTGAAGATGGACCGAGTCAAGCAGGTCTGCGGAGATTATTTACTATCTAGAATGGATGTTACTAGCTGCATCTCTTACCGAAATTTTGCAAGTTGTATGGGAGACTCCCGTTTGTTGAATAAAGTTGACGCTTATATTCAGGAGCATTTGTTACAAATTTCAGAAGAGGAGGAATTTCTTAAGCTTCCGAGACTAAAGTTGGAGGTAATGCTTGAAGATAATGTGTGCTTGCCCAGCAATGGCAAGTTGTATACAAAGGTAATCAACTGGGTGCAGCGTAGCATCTGGGAGAATGGAGACAGCCTGGAGGAGCTCATGGAAGAGGTTCAAACCTTGTACTACTCAGCTGATCACAAGCTGCTTGATGGGAACCCACTAGATGGACAGGCTGAGGTGTTTGGCAGTGATGATGACCACATTCAGTTTGTGCAGAAAAAGCCACCCCGTGAGAATGGCCATAAGCAGATAAGTGGCAGTTCCACTGGATGTCTCTCTTCTCCAAATGCTTCAATGCAAAGCCCTAAGCATGAGTGGAAAATCGTTGCTTCAGAAAAGACTTCAAATAACACTTACTTGTGCCTGGCTGTGCTGGACAGTACATTCTGTGTCATTTTCCTTCATGGGCGGAACAGTCCACAGAGCTCACCAACAAGTACTCCAAAACTGAGCAAGAGTTTAAGCTTCGAGATGCAACCAGATGAGCTTCTAGAAAAGCCCATGTCTCCCATGCAGTACGCACGGTCTGGACTAGGGACAGCAGAGATGAATGGCAAACTCATAGCTGCAGCCAAATTTATAAGGAAAAATGATTCCCAATGGATATTTGATGTTTGA
Peptide sequence:
MIPNGYLMFEDENFIESSVAKLNALRKSGQFCDVRLQVCGHEMLAHRAVLACCSPYLFEIFNSDSDPHGVSHVKLDDLNPEAVEVLLNYAYTAQLKADKELVKDVYSAAKKLKMDRVKQVCGDYLLSRMDVTSCISYRNFASCMGDSRLLNKVDAYIQEHLLQISEEEEFLKLPRLKLEVMLEDNVCLPSNGKLYTKVINWVQRSIWENGDSLEELMEEVQTLYYSADHKLLDGNPLDGQAEVFGSDDDHIQFVQKKPPRENGHKQISGSSTGCLSSPNASMQSPKHEWKIVASEKTSNNTYLCLAVLDSTFCVIFLHGRNSPQSSPTSTPKLSKSLSFEMQPDELLEKPMSPMQYARSGLGTAEMNGKLIAAAKFIRKNDSQWIFDV
IRESfinder result
IRESfinder score
0.567238115
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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