top of page
mmu_circRbl1_1747
Basic information of circular RNA
PanCircBase ID:
mmu_circRbl1_1747
mm39_Chr. Position ID:
chr2|157016694|157041469|-
Gene name:
Rbl1
Transcript:
ENSMUST00000029170.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
13
Exon/intron indexes:
14,13,12,11,10,9,8,7,6,5,4,3,2
Exon/intron offsets:
0,753,2444,13160,13448,17132,18301,19237,20505,20766,20985,21380,24641
Genomic length:
24775
Exon/intron sizes in nt:
13,31,65,13,81,04,11,30,00,00,00,00,00,00,00,00,00,000
Flanking exon/introns:
chr2:157012050-157016694|chr2:157041469-157046219
Splice length:
1747
Other database IDs:
CIRCpedia: MMU_CIRCpedia_10802
circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_157443
Human Ortholog IDs:
Mature spliced Sequence:
GGAGAAGTTATACACTGGCTGGCATGCTCTTTATATGTTGCTTGCCGCAAGAGCATCATTCCTACTGTGGGAAAGGGCGTCATGGAAGGAAACTGTGTCTCACTCACCAGAATACTGCGCTCAGCTAAGTTAAGCTTAATACAGTTTTTTAGTAAAATGAAGAAATGGATGGACATGTCAAACCTACCACAAGAGTTTCGTGAGCGGATAGAAAGGCTAGAAAGAAATTTTGAAGTATCTACTGTAATTTTTAAAAAATTTGAGCCCATTTTTTTAGATATCTTTCAAAATCCATATGAAGAGCCACCAAAGTTGCCCCGGAGCCGAAAACAGAGGAGGATCCCCTGCAGTGTTAAGGACCTCTTTAACTTCTGCTGGACACTCTTTGTTTACACCAAGGGGAATTTCCGTATGATTGGTGATGATTTAGTAAACTCCTATCATTTACTTCTGTGCTGCTTGGACCTGATCTTTGCCAATGCTATAATGTGCCCAAATAGACGAGACTTGTTAAATCCATCATTTAAAGGCTTACCATCTGATTTCCATGCTCCGGACTTCAAAGCCGCAGAAGAGCCTCCGTGCATCATTGCTGTACTTTGTGATCTGCATGACGGACTTCTAGTAGAAGCAAAAGGGATAAAGGAGCATTACTTTAAGCCATATATTTCAAAGCTCTTTGATAAGAAGATTTTAAAAGGTGAATGCCTCTTGGATCTTTCCAGCTTTACTGATAATAGCAAAGCCGTGAACAAGGAATATGAAGAGTATGTCCTAACTGTTGGGGACTTCGATGAGAGGATCTTTTTGGGAGCAGATGCAGAGGAGGAGATTGGAACACCTCGAAAGTTCACTGCTGACACCCCATTTGGGAAACTGACATCACAGGCCAGTGTGGAATGCAACCTTCAACAACACTTTGAAAAAAAACGGTCATTTGCACCTTCTACCCCACTTACTGGACGGCGGTATTTACAAGAAAAAGAGGCAGTCACCACGCCTGTAGCTTCAGCCACTCAAAGTGTAAGCCGGTTACAGAGCATCGTCGCTGGATTAAAAAGCGCACCAAGTGAGCAGCTTCTGAATATTTTTGAATCTTGTATGCGGAATCCTATGGGAAACATTATAAAAATTGTGAAAGGAATAGGAGAGACTTTCTGCCAACACTATACCCAGTCCACAGATAAACAGCCAGGATCTCACATAGACTTTGCTGTAAACAGACTAAAACTGGCAGAAATTTTGTATTACAAAATACTGGAGACTATAATGGTCCAGGAAACACGACGGCTTCATGGAATGGACATGTCGGTTCTTTTAGAGCAAGATATATTTCATAAATCCTTGATGGCTTGTTGTTTGGAAATTGTGCTCTTTGCATATAGCTCACCCCGTACTTTCCCGTGGATTATTGAAGTTCTCGATTTGCAGCCATTTTATTTTTATAAGGTTATTGAGGTGGTGATCCGCTCAGAGGAGGGCCTTTCCAGAGACATGGTGAAACATCTGAACAGCATTGAAGAACAGATTTTGGAGAGTTTGGCTTGGACTAATAATTCTGCACTGTGGGAGGCTCTGCATGCTTCTGCAAACAGAGTCCCTTCCTGTGAAGAAGTTATATTCCCTAATAACTTTGAAATAGGTAATGGAGGAAATGTGCAAGGCCATCTCCCCATGATGCCAATGTCTCCAATAATACATCCAAGAGTCAAGGAAGTTCGCACTGACAGTGGGAGCCTTCGACAGG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CCATCTCCCCATGATGCCAA
59.81
TCCTTCCATGACGCCCTTTC
60.04
173
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CCATCTCCCCATGATGCCAA
59.81
GTTTCCTTCCATGACGCCCT
60.32
176
PCR template sequence:
GGAGGAAATGTGCAAGGCCATCTCCCCATGATGCCAATGTCTCCAATAATACATCCAAGAGTCAAGGAAGTTCGCACTGACAGTGGGAGCCTTCGACAGGGGAGAAGTTATACACTGGCTGGCATGCTCTTTATATGTTGCTTGCCGCAAGAGCATCATTCCTACTGTGGGAAAGGGCGTCATGGAAGGAAACTGTGTCT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
13
Interacting miRNAs (#binding sites)
mmu-miR-188-3p(2), mmu-miR-16-5p(1), mmu-miR-15a-5p(1), mmu-miR-223-3p(1), mmu-miR-15b-5p(1), mmu-miR-146a-5p(1), mmu-miR-320-3p(1), mmu-miR-136-5p(1), mmu-miR-182-5p(1), mmu-miR-344d-3p(1), mmu-miR-207(1), mmu-miR-146b-5p(1), mmu-miR-7a-2-3p(1)
siRNAs for circular RNA silencing
Junction sequence
AGCCTTCGACAGGGGAGAAGTTATAC
siRNA sets
ATAACTTCTCCCCTGTCGA, TATAACTTCTCCCCTGTCG, GTATAACTTCTCCCCTGTC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCRBL1_1747_ORF_1
0.6342
0.026769313
0.999865006
1794
ORF sequence:
ATGGAAGGAAACTGTGTCTCACTCACCAGAATACTGCGCTCAGCTAAGTTAAGCTTAATACAGTTTTTTAGTAAAATGAAGAAATGGATGGACATGTCAAACCTACCACAAGAGTTTCGTGAGCGGATAGAAAGGCTAGAAAGAAATTTTGAAGTATCTACTGTAATTTTTAAAAAATTTGAGCCCATTTTTTTAGATATCTTTCAAAATCCATATGAAGAGCCACCAAAGTTGCCCCGGAGCCGAAAACAGAGGAGGATCCCCTGCAGTGTTAAGGACCTCTTTAACTTCTGCTGGACACTCTTTGTTTACACCAAGGGGAATTTCCGTATGATTGGTGATGATTTAGTAAACTCCTATCATTTACTTCTGTGCTGCTTGGACCTGATCTTTGCCAATGCTATAATGTGCCCAAATAGACGAGACTTGTTAAATCCATCATTTAAAGGCTTACCATCTGATTTCCATGCTCCGGACTTCAAAGCCGCAGAAGAGCCTCCGTGCATCATTGCTGTACTTTGTGATCTGCATGACGGACTTCTAGTAGAAGCAAAAGGGATAAAGGAGCATTACTTTAAGCCATATATTTCAAAGCTCTTTGATAAGAAGATTTTAAAAGGTGAATGCCTCTTGGATCTTTCCAGCTTTACTGATAATAGCAAAGCCGTGAACAAGGAATATGAAGAGTATGTCCTAACTGTTGGGGACTTCGATGAGAGGATCTTTTTGGGAGCAGATGCAGAGGAGGAGATTGGAACACCTCGAAAGTTCACTGCTGACACCCCATTTGGGAAACTGACATCACAGGCCAGTGTGGAATGCAACCTTCAACAACACTTTGAAAAAAAACGGTCATTTGCACCTTCTACCCCACTTACTGGACGGCGGTATTTACAAGAAAAAGAGGCAGTCACCACGCCTGTAGCTTCAGCCACTCAAAGTGTAAGCCGGTTACAGAGCATCGTCGCTGGATTAAAAAGCGCACCAAGTGAGCAGCTTCTGAATATTTTTGAATCTTGTATGCGGAATCCTATGGGAAACATTATAAAAATTGTGAAAGGAATAGGAGAGACTTTCTGCCAACACTATACCCAGTCCACAGATAAACAGCCAGGATCTCACATAGACTTTGCTGTAAACAGACTAAAACTGGCAGAAATTTTGTATTACAAAATACTGGAGACTATAATGGTCCAGGAAACACGACGGCTTCATGGAATGGACATGTCGGTTCTTTTAGAGCAAGATATATTTCATAAATCCTTGATGGCTTGTTGTTTGGAAATTGTGCTCTTTGCATATAGCTCACCCCGTACTTTCCCGTGGATTATTGAAGTTCTCGATTTGCAGCCATTTTATTTTTATAAGGTTATTGAGGTGGTGATCCGCTCAGAGGAGGGCCTTTCCAGAGACATGGTGAAACATCTGAACAGCATTGAAGAACAGATTTTGGAGAGTTTGGCTTGGACTAATAATTCTGCACTGTGGGAGGCTCTGCATGCTTCTGCAAACAGAGTCCCTTCCTGTGAAGAAGTTATATTCCCTAATAACTTTGAAATAGGTAATGGAGGAAATGTGCAAGGCCATCTCCCCATGATGCCAATGTCTCCAATAATACATCCAAGAGTCAAGGAAGTTCGCACTGACAGTGGGAGCCTTCGACAGGGGAGAAGTTATACACTGGCTGGCATGCTCTTTATATGTTGCTTGCCGCAAGAGCATCATTCCTACTGTGGGAAAGGGCGTCATGGAAGGAAACTGTGTCTCACTCACCAGAATACTGCGCTCAGCTAA
Peptide sequence:
MEGNCVSLTRILRSAKLSLIQFFSKMKKWMDMSNLPQEFRERIERLERNFEVSTVIFKKFEPIFLDIFQNPYEEPPKLPRSRKQRRIPCSVKDLFNFCWTLFVYTKGNFRMIGDDLVNSYHLLLCCLDLIFANAIMCPNRRDLLNPSFKGLPSDFHAPDFKAAEEPPCIIAVLCDLHDGLLVEAKGIKEHYFKPYISKLFDKKILKGECLLDLSSFTDNSKAVNKEYEEYVLTVGDFDERIFLGADAEEEIGTPRKFTADTPFGKLTSQASVECNLQQHFEKKRSFAPSTPLTGRRYLQEKEAVTTPVASATQSVSRLQSIVAGLKSAPSEQLLNIFESCMRNPMGNIIKIVKGIGETFCQHYTQSTDKQPGSHIDFAVNRLKLAEILYYKILETIMVQETRRLHGMDMSVLLEQDIFHKSLMACCLEIVLFAYSSPRTFPWIIEVLDLQPFYFYKVIEVVIRSEEGLSRDMVKHLNSIEEQILESLAWTNNSALWEALHASANRVPSCEEVIFPNNFEIGNGGNVQGHLPMMPMSPIIHPRVKEVRTDSGSLRQGRSYTLAGMLFICCLPQEHHSYCGKGRHGRKLCLTHQNTALS
IRESfinder result
IRESfinder score
0.700142139
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
bottom of page