top of page
mmu_circUbap2_767
Basic information of circular RNA
PanCircBase ID:
mmu_circUbap2_767
mm39_Chr. Position ID:
chr4|41216565|41235594|-
Gene name:
Ubap2
Transcript:
ENSMUST00000108068.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
9
Exon/intron indexes:
11,10,9,8,7,6,5,4,3
Exon/intron offsets:
0,1745,4990,6790,9714,10633,13129,17038,18951
Genomic length:
19029
Exon/intron sizes in nt:
68,53,66,104,55,78,154,111,78
Flanking exon/introns:
chr4:41211894-41216565|chr4:41235594-41251534
Splice length:
767
Other database IDs:
circBase: mmu_circ_0011600, CIRCpedia: MMU_CIRCpedia_37382, circAtlas: mmu-Ubap2_0022
circAtlas: hsa-UBAP2_0048
Human Ortholog IDs:
Mature spliced Sequence:
GCAACAGCTGAGCAGATGCGGCTTGCTCAAGTGATCTTTGATAAGAATGATTCAGATTTTGAAGCTAAAGTTAAGCAGCTTATGGAAGTGACGGGAAAAAATCAGGATGAATGCATCGTGGCCCTACATGACTGTAATGGTGATGTGAACAAAGCTATCAATATACTGTTGGAAGGGAATTCTGACACCACTTCATGGGAGACTGTAGGAGGGAAGAAGAAGAATTTTGGAAGAGAAAGTTCAGAAAACAAAGAAAACAGAGAGAAGAGGACGGAGAGAGAAGCGAGTCGTGGACGGGGAACCAACAACCGCAAGGGAAGAGGCGGCAACCGAGTCCGAGAGTTCAAAGGTGAAGAGAATGGGATTGACTGCAGCCAAGGAGACAAGCCTGCGGAGCGGGGCAAGCGGGCCCGAGGCAGAGGATTTGGACGTGGCAGGGGCAGAGGGACAGGAAGGTTCTCCGCTCAAAGCATGGGGACATTCAATCCTGCAGACTATTCAGAGTCCATGTCTACAGATGGCTGTGGGACAAAGTTGGCAGTTTGGGAAGCTGCTCAGAATGGTACAGATGAGGGACCGGAAGGGCTGGCCAAGTCTCACAGTATGTCTCAGGAACCGCCAAGTAAAAGTTCTTATGGACTTAAAGGTGCCTGGAAGAATTCTGTGGAAGAGTGGACAACAGAAGACTGGACTGAAGATCTCTCTGAAACAAAGGTATTCACTGCTTCATCTGCTCCAGCAGAGAACCATGTCACACCTGGGCACAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ACTGCTTCATCTGCTCCAGC
60.39
CCGTCACTTCCATAAGCTGC
58.99
141
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ACTGCTTCATCTGCTCCAGC
60.39
TCCCGTCACTTCCATAAGCTG
59.79
143
PCR template sequence:
AAGAGTGGACAACAGAAGACTGGACTGAAGATCTCTCTGAAACAAAGGTATTCACTGCTTCATCTGCTCCAGCAGAGAACCATGTCACACCTGGGCACAGGCAACAGCTGAGCAGATGCGGCTTGCTCAAGTGATCTTTGATAAGAATGATTCAGATTTTGAAGCTAAAGTTAAGCAGCTTATGGAAGTGACGGGAAAAA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
2
Interacting miRNAs (#binding sites)
mmu-miR-532-5p(1), mmu-miR-3105-3p(1)
siRNAs for circular RNA silencing
Junction sequence
CACCTGGGCACAGGCAACAGCTGAGC
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCUBAP2_767_ORF_1
0.8431
0.202916796
0.942163364
786
ORF sequence:
ATGCGGCTTGCTCAAGTGATCTTTGATAAGAATGATTCAGATTTTGAAGCTAAAGTTAAGCAGCTTATGGAAGTGACGGGAAAAAATCAGGATGAATGCATCGTGGCCCTACATGACTGTAATGGTGATGTGAACAAAGCTATCAATATACTGTTGGAAGGGAATTCTGACACCACTTCATGGGAGACTGTAGGAGGGAAGAAGAAGAATTTTGGAAGAGAAAGTTCAGAAAACAAAGAAAACAGAGAGAAGAGGACGGAGAGAGAAGCGAGTCGTGGACGGGGAACCAACAACCGCAAGGGAAGAGGCGGCAACCGAGTCCGAGAGTTCAAAGGTGAAGAGAATGGGATTGACTGCAGCCAAGGAGACAAGCCTGCGGAGCGGGGCAAGCGGGCCCGAGGCAGAGGATTTGGACGTGGCAGGGGCAGAGGGACAGGAAGGTTCTCCGCTCAAAGCATGGGGACATTCAATCCTGCAGACTATTCAGAGTCCATGTCTACAGATGGCTGTGGGACAAAGTTGGCAGTTTGGGAAGCTGCTCAGAATGGTACAGATGAGGGACCGGAAGGGCTGGCCAAGTCTCACAGTATGTCTCAGGAACCGCCAAGTAAAAGTTCTTATGGACTTAAAGGTGCCTGGAAGAATTCTGTGGAAGAGTGGACAACAGAAGACTGGACTGAAGATCTCTCTGAAACAAAGGTATTCACTGCTTCATCTGCTCCAGCAGAGAACCATGTCACACCTGGGCACAGGCAACAGCTGAGCAGATGCGGCTTGCTCAAGTGA
Peptide sequence:
MRLAQVIFDKNDSDFEAKVKQLMEVTGKNQDECIVALHDCNGDVNKAINILLEGNSDTTSWETVGGKKKNFGRESSENKENREKRTEREASRGRGTNNRKGRGGNRVREFKGEENGIDCSQGDKPAERGKRARGRGFGRGRGRGTGRFSAQSMGTFNPADYSESMSTDGCGTKLAVWEAAQNGTDEGPEGLAKSHSMSQEPPSKSSYGLKGAWKNSVEEWTTEDWTEDLSETKVFTASSAPAENHVTPGHRQQLSRCGLLK
IRESfinder result
IRESfinder score
0.334164484
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
bottom of page