top of page
mmu_circOsbpl1a_1283
Basic information of circular RNA
PanCircBase ID:
mmu_circOsbpl1a_1283
mm39_Chr. Position ID:
chr18|13004134|13066759|-
Gene name:
Osbpl1a
Transcript:
ENSMUST00000074352.11
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
14
Exon/intron indexes:
15,14,13,12,11,10,9,8,7,6,5,4,3,2
Exon/intron offsets:
0,11118,21089,27125,33945,34116,34893,35810,38780,39999,43424,57183,57930,62502
Genomic length:
62625
Exon/intron sizes in nt:
10,78,21,23,99,64,74,40,00,00,00,00,00,00,00,000
Flanking exon/introns:
chr18:12974403-13004134|chr18:13066759-13074688
Splice length:
1283
Other database IDs:
CIRCpedia: MMU_CIRCpedia_7269, circAtlas: mmu-Osbpl1a_0027
circBase: hsa_circ_0108097, circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_23503
Human Ortholog IDs:
Mature spliced Sequence:
AAATGAACACAGAAGCAGAACAGCAGCTTCTCCATCATGCCAGAAATGGCAATGCTGAAGAGGTGCGAAAGCTGCTGGCAGCCATGGCACGGATGGAAGTGGTCGCTGACATCGACTGTAAAGGAAGAAGTAAGTCTAACTTGGGCTGGACACCTCTTCACCTGGCATGCTATTTTGGACACAAACAAGTGGTCGAGGATCTGTTGAAGGCTGGTGCAAAAGTGAACATGTTAAACGACATGGGGGACACGCCACTGCATCGAGCCGCCTTCACAGGACGAAAGGAGCTGGTCTTGCTTCTTTTAGAATACGATGCTGACAGTACAGTTGTAAATGGAAGTGGACAGACAGCAAAAGAAGCCACCCATGACAAAGAAATCAGAAACATGCTTGAAGCTGTGGAGAGGACTCAACAAAGAAAGCTTGAAGAATTGCTTTTAGGAGCAGCTAGAGAAGGAAGAACAGCCGAAGTATCAGCTCTGCTCAGCAGGCCCAATCCTCCTGATGTGAACTGCTCAGATCAGCTAGGAAATACCCCCTTACACTGTGCCGCCTACCGGGCCCACAAGCAGTGTGTCCTAAAGCTCCTGAGAAGCGGAGCTGACCCCAGCCTGAAGAACAAGAACGATCAGAAACCTCTTGACCTTGCCCAGGGTGCTGAAATGAAGCATATTCTTGTTGGTAATAAGGTTGTCCACAAAGCACTGAAACGCTACGAAGGCCCTCTCTGGAAGAGTTCAAGATTTTTTGGCTGGAAGTTATTTTGGGTAGTGTTAGAACATGGAGTCCTTTCCTGGTATAGGAAGCAGCCTGATGCAGTCCATAATTCTTATCGCCAAGGATGCAAACACCTGACTCAAGCCGTGTGCACGGTGAAACCTACAGATAGCTGCCTCTTCTCCATTCGATGCTTTGATGACACTGTTCACTGCTTCAGGGTTCCTAAGAACAGCGTACAGCAATCAAGAGAGAAGTGGCTGGAAGCAATTGAAGAACACTCCGCATACAGCACTCACTACTGTTCCCAGGATCAGGTGACTGATGATGAAGAAGAAGATGTAGTTTCGGCCATGGACTTGAAGGAGTCGTTAGCGAGAGCACAAACATGTCAACAGAGACTAGATAGGGAAATTTACAACTTTCTCAAAATGATTAAGGAGTGTGATGTGGCCAAAGATATGCTTCCATCGTTTCTTCAGAAAGCTGATATTGTCTCCGAAGCTTCTAGAGAGACTTGTGTGGCGTTGAATGACTGTCTTAATCTCTTCACTAAACAGGAAGGG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AGAGACTTGTGTGGCGTTGA
59.54
ACTTCCATCCGTGCCATGG
60.08
155
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AGAGAGACTTGTGTGGCGTT
59.25
ACTTCCATCCGTGCCATGG
60.08
157
PCR template sequence:
TCCATCGTTTCTTCAGAAAGCTGATATTGTCTCCGAAGCTTCTAGAGAGACTTGTGTGGCGTTGAATGACTGTCTTAATCTCTTCACTAAACAGGAAGGGAAATGAACACAGAAGCAGAACAGCAGCTTCTCCATCATGCCAGAAATGGCAATGCTGAAGAGGTGCGAAAGCTGCTGGCAGCCATGGCACGGATGGAAGT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
5
Interacting miRNAs (#binding sites)
mmu-miR-217-5p(1), mmu-miR-370-3p(1), mmu-miR-5101(1), mmu-miR-335-3p(1), mmu-miR-1904(1)
siRNAs for circular RNA silencing
Junction sequence
TAAACAGGAAGGGAAATGAACACAGA
siRNA sets
CTGTGTTCATTTCCCTTCC, TGTGTTCATTTCCCTTCCT, TGTTCATTTCCCTTCCTGT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCOSBPL1A_1283_ORF_1
0.9459
0.180376099
0.998469835
1287
ORF sequence:
ATGAACACAGAAGCAGAACAGCAGCTTCTCCATCATGCCAGAAATGGCAATGCTGAAGAGGTGCGAAAGCTGCTGGCAGCCATGGCACGGATGGAAGTGGTCGCTGACATCGACTGTAAAGGAAGAAGTAAGTCTAACTTGGGCTGGACACCTCTTCACCTGGCATGCTATTTTGGACACAAACAAGTGGTCGAGGATCTGTTGAAGGCTGGTGCAAAAGTGAACATGTTAAACGACATGGGGGACACGCCACTGCATCGAGCCGCCTTCACAGGACGAAAGGAGCTGGTCTTGCTTCTTTTAGAATACGATGCTGACAGTACAGTTGTAAATGGAAGTGGACAGACAGCAAAAGAAGCCACCCATGACAAAGAAATCAGAAACATGCTTGAAGCTGTGGAGAGGACTCAACAAAGAAAGCTTGAAGAATTGCTTTTAGGAGCAGCTAGAGAAGGAAGAACAGCCGAAGTATCAGCTCTGCTCAGCAGGCCCAATCCTCCTGATGTGAACTGCTCAGATCAGCTAGGAAATACCCCCTTACACTGTGCCGCCTACCGGGCCCACAAGCAGTGTGTCCTAAAGCTCCTGAGAAGCGGAGCTGACCCCAGCCTGAAGAACAAGAACGATCAGAAACCTCTTGACCTTGCCCAGGGTGCTGAAATGAAGCATATTCTTGTTGGTAATAAGGTTGTCCACAAAGCACTGAAACGCTACGAAGGCCCTCTCTGGAAGAGTTCAAGATTTTTTGGCTGGAAGTTATTTTGGGTAGTGTTAGAACATGGAGTCCTTTCCTGGTATAGGAAGCAGCCTGATGCAGTCCATAATTCTTATCGCCAAGGATGCAAACACCTGACTCAAGCCGTGTGCACGGTGAAACCTACAGATAGCTGCCTCTTCTCCATTCGATGCTTTGATGACACTGTTCACTGCTTCAGGGTTCCTAAGAACAGCGTACAGCAATCAAGAGAGAAGTGGCTGGAAGCAATTGAAGAACACTCCGCATACAGCACTCACTACTGTTCCCAGGATCAGGTGACTGATGATGAAGAAGAAGATGTAGTTTCGGCCATGGACTTGAAGGAGTCGTTAGCGAGAGCACAAACATGTCAACAGAGACTAGATAGGGAAATTTACAACTTTCTCAAAATGATTAAGGAGTGTGATGTGGCCAAAGATATGCTTCCATCGTTTCTTCAGAAAGCTGATATTGTCTCCGAAGCTTCTAGAGAGACTTGTGTGGCGTTGAATGACTGTCTTAATCTCTTCACTAAACAGGAAGGGAAATGA
Peptide sequence:
MNTEAEQQLLHHARNGNAEEVRKLLAAMARMEVVADIDCKGRSKSNLGWTPLHLACYFGHKQVVEDLLKAGAKVNMLNDMGDTPLHRAAFTGRKELVLLLLEYDADSTVVNGSGQTAKEATHDKEIRNMLEAVERTQQRKLEELLLGAAREGRTAEVSALLSRPNPPDVNCSDQLGNTPLHCAAYRAHKQCVLKLLRSGADPSLKNKNDQKPLDLAQGAEMKHILVGNKVVHKALKRYEGPLWKSSRFFGWKLFWVVLEHGVLSWYRKQPDAVHNSYRQGCKHLTQAVCTVKPTDSCLFSIRCFDDTVHCFRVPKNSVQQSREKWLEAIEEHSAYSTHYCSQDQVTDDEEEDVVSAMDLKESLARAQTCQQRLDREIYNFLKMIKECDVAKDMLPSFLQKADIVSEASRETCVALNDCLNLFTKQEGK
IRESfinder result
IRESfinder score
0.440952943
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
bottom of page