top of page
mmu_circRint1_1798
Basic information of circular RNA
PanCircBase ID:
mmu_circRint1_1798
mm39_Chr. Position ID:
chr5|23999300|24020864|+
Gene name:
Rint1
Transcript:
ENSMUST00000030852.13
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
10
Exon/intron indexes:
3,4,5,6,7,8,9,10,11,12
Exon/intron offsets:
0,6292,11007,11268,12736,15481,15666,16594,17407,21349
Genomic length:
21564
Exon/intron sizes in nt:
1,85,24,21,74,15,01,57,00,00,00,00,00,00,000
Flanking exon/introns:
chr5:23993333-23999300|chr5:24020864-24021736
Splice length:
1798
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTGACGTGAACACTGCAGCTCCTGCTGGAAGCGAGCAGCTCAGCCAAGGTGGCAGTGACGACGCGCTCCTTTCCTATGTGTCTGCATTCATAGAGAAGGAAGTGGGAAGTGACCTTAAGTCTTTGAAGACACTTGGTAAACTCATAGAACAAATGACAGAAAGCAAAGTGAAGTTAGAAGAACAGGTACTTACAATTTCATCAGAAATCCCTAAAAGAATTCAAAGTGCTTTAAAAGATGCAGAGGAATCCAAACAACTTCTTGATGAGTTTCTGGAGCAGGAAGCGCCTCTCTTCAGCTCCATTAGCAGCCATCTGCTGATGGCTCAGCCCTGGATGGATGACCTTGGAGCCATGATCACCCAGATGGAAGAGATTGAGCGGCATCTCGCATACCTTAAGTGGGTGTCGCAGACTGAGGAGCTGAGTGATAACATTCAGCAGTACCTGATGACCAACAGTGTGCCAGAGGCAGCCTCTCTCCTGGTGACCATGACAGAACTGGACATCCAGCTTCAGGAGTCATCCTGTACTCATCTTCTTAGTTTCATGAGAGCCACAGTTAAATTCTGGCATAAAATTCTCAAGGACAAGCTTACCAGTGATTTTGAGGAAGTCTTGGCACAGCTGCATTGGCCATTCACCTCACATACCCAGTCGCAAACCGTTGGCGGGAGCCGGCCTGCCGGTACCCCGGAGCTGTACAGTAGCCTGGACACACTGTTTTGTCAGCTGTTGAAACTACAGGCCTCAGATGAGTTATTAACTGAGCCAAAACAACTCCCAGAAAAATACTGTCTTCCTGCCTCCCCTCCCGTGACCCTGCCCATACAGGTCATGCTGGCTCCCCTGCAGAAGAGATTCAGGTACCACTTCAGAGGCAGCCGGCAGACCAACGTCATGAGCAAGCCTGAATGGTACTTGGCTCAGGTACTTATGTGGATTGGAAACCATACACAGTTTCTGGATGAGAAGATTCAGCCAATATTGGACAAAGTGGGCTCTGCAGTAAATGCAAGGCTTGAGTTTTCCCGTGGCCTTGTGATGCTCATTCTTGAGAAGCTGGCTTCTGATATCCCCTGCCTGCTCTACGATGACAGCCTCTTCTGTCACCTGGTGGATGAGGTGCTGCTGTTTGAAAGGGAGCTGCACACCGTTCACGGCTATCCCAGCACATTCGCCAGCTGCATGCACATCCTGTCGGAGGAGACCTGTTTCCAGAGATGGCTGACTGTGGAGAGAAAGTTTGCTCTTCAAAAAATGGACTCAATGCTTTCGTCAGAGGCTGCCTGGGTATCCCAGTATAAAGACATCTCTGATGTGGATGAAATGAAGGTTCCAGACTGTGCGGAAGTCTTTATGACCCTGCTTTTGGTTATAACTGACAGGTATAAAAATCTCCCCACAGCCTCCCGGAAACTGCAGTTCCTGGAGCTACAGAAGGACCTGGTAGATGATTTCAGGATCCGGTTAACGCAGGTGATGAAGGAGGAGACGAGAGCGGCCCTGGGCTTTCGGTACTGTGCGATTCTCAATGCCGTGAACTATATCTCAGCAGTGCTGGCAGACTGGGCTGACAATGTTTTCTTTCTGCAGCTGCAACAGGCAGCACTGGAGGTCTTTGCAGAGAATAACGTCCTCAGTAAACTGCAGCTGGGACAGCTGGCCTCCATGGAGAGCTCGGTCTTCGATGACATGATCAACCTCTTAGAGCGTTTGAAGCTTGATATGTTGACCCGCCAAGTAGACCATGTTTTCAGAGAAGTGAAAGACTCTGCAAAGTTGTATAAGAAAGAAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGTTGACCCGCCAAGTAGAC
59.97
ACATAGGAAAGGAGCGCGTC
60.18
149
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CCCGCCAAGTAGACCATGTT
60.04
ACATAGGAAAGGAGCGCGTC
60.18
143
PCR template sequence:
TCAACCTCTTAGAGCGTTTGAAGCTTGATATGTTGACCCGCCAAGTAGACCATGTTTTCAGAGAAGTGAAAGACTCTGCAAAGTTGTATAAGAAAGAAAGGTGACGTGAACACTGCAGCTCCTGCTGGAAGCGAGCAGCTCAGCCAAGGTGGCAGTGACGACGCGCTCCTTTCCTATGTGTCTGCATTCATAGAGAAGGA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
18
Interacting miRNAs (#binding sites)
mmu-miR-205-5p(2), mmu-miR-16-5p(1), mmu-miR-15a-5p(1), mmu-miR-7b-5p(1), mmu-miR-223-3p(1), mmu-miR-322-5p(1), mmu-miR-15b-5p(1), mmu-miR-7a-5p(1), mmu-miR-709(1), mmu-miR-185-5p(1), mmu-miR-24-3p(1), mmu-miR-26b-5p(1), mmu-miR-382-5p(1), mmu-miR-541-5p(1), mmu-miR-324-3p(1), mmu-miR-98-5p(1), mmu-miR-5101(1), mmu-miR-202-3p(1)
siRNAs for circular RNA silencing
Junction sequence
ATAAGAAAGAAAGGTGACGTGAACAC
siRNA sets
TTCACGTCACCTTTCTTTC, TCACGTCACCTTTCTTTCT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCRINT1_1798_ORF_1
1.2169
0.269179105
0.999951957
1650
ORF sequence:
ATGACAGAAAGCAAAGTGAAGTTAGAAGAACAGGTACTTACAATTTCATCAGAAATCCCTAAAAGAATTCAAAGTGCTTTAAAAGATGCAGAGGAATCCAAACAACTTCTTGATGAGTTTCTGGAGCAGGAAGCGCCTCTCTTCAGCTCCATTAGCAGCCATCTGCTGATGGCTCAGCCCTGGATGGATGACCTTGGAGCCATGATCACCCAGATGGAAGAGATTGAGCGGCATCTCGCATACCTTAAGTGGGTGTCGCAGACTGAGGAGCTGAGTGATAACATTCAGCAGTACCTGATGACCAACAGTGTGCCAGAGGCAGCCTCTCTCCTGGTGACCATGACAGAACTGGACATCCAGCTTCAGGAGTCATCCTGTACTCATCTTCTTAGTTTCATGAGAGCCACAGTTAAATTCTGGCATAAAATTCTCAAGGACAAGCTTACCAGTGATTTTGAGGAAGTCTTGGCACAGCTGCATTGGCCATTCACCTCACATACCCAGTCGCAAACCGTTGGCGGGAGCCGGCCTGCCGGTACCCCGGAGCTGTACAGTAGCCTGGACACACTGTTTTGTCAGCTGTTGAAACTACAGGCCTCAGATGAGTTATTAACTGAGCCAAAACAACTCCCAGAAAAATACTGTCTTCCTGCCTCCCCTCCCGTGACCCTGCCCATACAGGTCATGCTGGCTCCCCTGCAGAAGAGATTCAGGTACCACTTCAGAGGCAGCCGGCAGACCAACGTCATGAGCAAGCCTGAATGGTACTTGGCTCAGGTACTTATGTGGATTGGAAACCATACACAGTTTCTGGATGAGAAGATTCAGCCAATATTGGACAAAGTGGGCTCTGCAGTAAATGCAAGGCTTGAGTTTTCCCGTGGCCTTGTGATGCTCATTCTTGAGAAGCTGGCTTCTGATATCCCCTGCCTGCTCTACGATGACAGCCTCTTCTGTCACCTGGTGGATGAGGTGCTGCTGTTTGAAAGGGAGCTGCACACCGTTCACGGCTATCCCAGCACATTCGCCAGCTGCATGCACATCCTGTCGGAGGAGACCTGTTTCCAGAGATGGCTGACTGTGGAGAGAAAGTTTGCTCTTCAAAAAATGGACTCAATGCTTTCGTCAGAGGCTGCCTGGGTATCCCAGTATAAAGACATCTCTGATGTGGATGAAATGAAGGTTCCAGACTGTGCGGAAGTCTTTATGACCCTGCTTTTGGTTATAACTGACAGGTATAAAAATCTCCCCACAGCCTCCCGGAAACTGCAGTTCCTGGAGCTACAGAAGGACCTGGTAGATGATTTCAGGATCCGGTTAACGCAGGTGATGAAGGAGGAGACGAGAGCGGCCCTGGGCTTTCGGTACTGTGCGATTCTCAATGCCGTGAACTATATCTCAGCAGTGCTGGCAGACTGGGCTGACAATGTTTTCTTTCTGCAGCTGCAACAGGCAGCACTGGAGGTCTTTGCAGAGAATAACGTCCTCAGTAAACTGCAGCTGGGACAGCTGGCCTCCATGGAGAGCTCGGTCTTCGATGACATGATCAACCTCTTAGAGCGTTTGAAGCTTGATATGTTGACCCGCCAAGTAGACCATGTTTTCAGAGAAGTGAAAGACTCTGCAAAGTTGTATAAGAAAGAAAGGTGA
Peptide sequence:
MTESKVKLEEQVLTISSEIPKRIQSALKDAEESKQLLDEFLEQEAPLFSSISSHLLMAQPWMDDLGAMITQMEEIERHLAYLKWVSQTEELSDNIQQYLMTNSVPEAASLLVTMTELDIQLQESSCTHLLSFMRATVKFWHKILKDKLTSDFEEVLAQLHWPFTSHTQSQTVGGSRPAGTPELYSSLDTLFCQLLKLQASDELLTEPKQLPEKYCLPASPPVTLPIQVMLAPLQKRFRYHFRGSRQTNVMSKPEWYLAQVLMWIGNHTQFLDEKIQPILDKVGSAVNARLEFSRGLVMLILEKLASDIPCLLYDDSLFCHLVDEVLLFERELHTVHGYPSTFASCMHILSEETCFQRWLTVERKFALQKMDSMLSSEAAWVSQYKDISDVDEMKVPDCAEVFMTLLLVITDRYKNLPTASRKLQFLELQKDLVDDFRIRLTQVMKEETRAALGFRYCAILNAVNYISAVLADWADNVFFLQLQQAALEVFAENNVLSKLQLGQLASMESSVFDDMINLLERLKLDMLTRQVDHVFREVKDSAKLYKKER
IRESfinder result
IRESfinder score
0.542591369
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
bottom of page