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mmu_circSbno1_3127
Basic information of circular RNA
PanCircBase ID:
mmu_circSbno1_3127
mm39_Chr. Position ID:
chr5|124514160|124542385|-
Gene name:
Sbno1
Transcript:
ENSMUST00000065263.12
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
24
Exon/intron indexes:
31,30,29,28,27,26,25,24,23,22,21,20,19,18,17,16,15,14,13,12,11,10,9,8
Exon/intron offsets:
0,2372,3187,5411,5585,5761,8369,10732,11221,11379,12427,15824,16476,16741,17703,19797,22314,23906,24610,24864,25043,25964,27862,28091
Genomic length:
28225
Exon/intron sizes in nt:
19,47,71,38,93,95,14,70,00,00,00,00,00,00,00,00,00,00,00,00,00,00,00,00,00,00,00,00,00,00,00,000
Flanking exon/introns:
chr5:124512734-124514160|chr5:124542385-124543631
Splice length:
3127
Other database IDs:
CIRCpedia: MMU_CIRCpedia_223213, circAtlas: mmu-Sbno1_0085
Human Ortholog IDs:
Mature spliced Sequence:
CAACATGAAACATTCCTACCTAATGGAGACCGTGCTGGCTTCTTAATAGGCGATGGTGCTGGTGTGGGTAAAGGCCGGACAATAGCAGGGATCATATATGAAAACTATTTGTTGAGTAGAAAAAGAGCATTGTGGTTTAGTGTATCAAATGACTTAAAATATGATGCTGAAAGAGATTTAAGGGATATTGGAGCAAAAAACATTTTGGTCCATTCGTTAAATAAGTTTAAATATGGTAAGATTTCTTCCAAACACAATGGGAGTGTGAAAAAAGGTGTTATTTTTGCTACCTATTCTTCCCTTATTGGTGAAAGCCAGTCTGGTGGTAAATATAAGACCAGGTTAAAACAGCTTCTACACTGGTGTGGTGACGACTTCGATGGAGTGATAGTGTTTGATGAATGTCACAAAGCAAAAAACTTATGTCCTGTTGGTTCTTCAAAGCCAACCAAGACAGGCTTGGCTGTTTTAGAGCTTCAGAACAAATTGCCAAAAGCCAGAGTTGTTTATGCCAGTGCCACTGGTGCTTCTGAACCACGCAACATGGCCTACATGAACCGTCTTGGAATATGGGGTGAGGGAACTCCATTCAGAGAATTTAGTGATTTTATCCAAGCTGTGGAACGCAGAGGTGTTGGTGCCATGGAAATCGTTGCTATGGATATGAAGCTTAGAGGAATGTACATTGCACGGCAGCTGAGCTTTACTGGAGTGACCTTCAAAATTGAGGAAGTTCTTCTTTCTCAAAGCTATGTGAAAATGTATAACAAAGCAGTCAAGCTGTGGGTTATCGCTAGAGAGCGATTTCAACAAGCTGCAGATTTGATTGATGCTGAGCAGAGAATGAAGAAATCGATGTGGGGTCAGTTCTGGTCTGCTCACCAGAGGTTTTTTAAGTACCTGTGTATAGCATCCAAAGTGAAAAGGGTGGTGCAGCTGGCTCGGGAAGAGATCAAGAACGGGAAGTGTGTTGTAATTGGTCTTCAGTCTACAGGAGAAGCCAGAACTTTAGAGGCCTTGGAAGAGGGAGGAGGAGAACTAAATGATTTTGTTTCAACTGCCAAAGGGGTATTGCAGTCACTGATTGAAAAACACTTCCCTGCTCCAGACAGGAAGAAACTTTATAGTTTGCTAGGAATCGATTTGACAGCCCCAAGTAACAACAGTTCACCAAGAGATAGTCCTTGTAAAGAAAATAAAATAAAGAAGCGGAAAGGTGAAGAAATCACTCGAGAAGCCAAAAAAGCACGAAAAGTTGGTGGCCTCACAGGAAGCAGCTCTGACGACAGTGGAAGTGAGTCTGTGTCTGATAATGACGAAAGCGACTATGAGAGCTCTAAAAACATGAGCTCTGGGGATGATGACGATTTCAATCCCTTCAGAGATGAGTCCAGTGAAGACAATGAGGATGATCCGTGGTTAATTAGGAAAGACCATAAGAAAAGCAAAGATAAAAAAAAGAAGAAAAGTATAGATCCAGATTCCATTCAAAGTGCCTTGTTAGCATCAGGTCTTGGATCAAAGCGGCCTAGTTTCTCCTCTGCACCAGTCATCTCGCCTGCTTCCAACAGTGCACCAGCCAACAGTAACAGCAACAGCAACAGCAGCCTTGTAACAAGTCAAGATGCTGTCGAAAGGGCGCAACAGATGAAGAAAGACCTGCTTGATAAACTAGAAAAATTGGCTGAAGACCTCCCTCCTAACACCCTGGATGAACTTATCGATGAACTTGGTGGTCCTGAAAATGTGGCTGAGATGACTGGCCGCAAAGGGCGGGTAGTGAGCAATGATGACGGAAGCATATCCTACGAGTCGAGGTCTGAACTTGATGTGCCTGTGGAGATTCTAAACATCACAGAGAAGCAAAGGTTCATGGATGGAGACAAGAATATTGCTATTATCTCAGAAGCTGCCAGCTCAGGTATTTCATTACAAGCAGATCGGAGAGCTAAAAACCAAAGGCGAAGAGTTCACATGACTTTAGAATTACCTTGGAGTGCTGATAGGGCGATTCAGCAGTTTGGAAGAACACACAGGTCAAACCAAGTGACTGCTCCAGAGTATGTTTTTTTGATTTCGGAACTGGCTGGAGAACAGAGATTTGCATCTATTGTTGCTAAAAGACTTGAGAGTTTGGGGGCACTTACACATGGTGACAGAAGAGCAACAGAATCTAGAGATCTGAGCAGATTCAACTTTGACAACAAGTATGGAAGAAATGCTTTAGAAATTGTTATGAAATCCATTGTAAACTTGGATTCTCCTATGGTATCACCACCTCCAGACTACCCTGGAGAATTCTTTAAAGACGTTCGGCAAGGACTGATAGGAGTGGGCTTGATTAATGTAGAGGATCGCTCAGGAATTCTTACTCTTGATAAAGACTATAACAATATAGGAAAGTTCTTAAACAGAATCCTGGGCATGGAGGTGCATCAGCAGAATGCGCTGTTTCAGTATTTTGCAGACACACTTACTGCAGTTGTTCAGAATGCCAAGAAGAACGGAAGATACGACATGGGAATCCTAGATCTGGGTTCTGGAGATGAGAAGGTGAGGAAGAGTGATGTCAAGAAGTTTCTAACTCCAGGGTATTCAACCTCCGGCCATGTAGAGTTATACACGATTAGTGTGGAGAGGGGAATGTCCTGGGAGGAAGCAACCAAGATTTGGGCAGAGCTGACTGGACCAGATGATGGCTTTTACTTATCATTGCAGATAAGAAACAACAAAAAAACTGCAATCTTAGTTAAAGAAGTAAACCCTAAGAAGAAACTATTTTTAATTTACCGACCAAACACTGGGAAGCAACTCAAATTAGAAATTTATGCTGACCTGAAAAAGAAATATAAGAAGGTAGTTTCTGATGACGCCCTGGTACACTGGCTGGATCAGTATAACTCCTCTGCAGACACCTGTACTCACGCATACTGGCGTGGCAATTGCAAAAAAGCAAGTTTAGGATTGGTATGTGAGATTGGTCTCCGCTGCCGCACGTACTATGTACTGTGTGGCTCAGTACTGAGCGTCTGGACAAAAGTGGAAGGTGTTCTGGCCTCTGTCAGCGGCACAAATGTGAAAATGCAGATAGTGCGGCTAAGGACCGAAGATGGGCAGCGGATTGTAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CTCTGTCAGCGGCACAAATG
59.83
TTACCCACACCAGCACCATC
59.96
142
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AAGTGGAAGGTGTTCTGGCC
60.18
TTACCCACACCAGCACCATC
59.96
161
PCR template sequence:
GTCTGGACAAAAGTGGAAGGTGTTCTGGCCTCTGTCAGCGGCACAAATGTGAAAATGCAGATAGTGCGGCTAAGGACCGAAGATGGGCAGCGGATTGTAGCAACATGAAACATTCCTACCTAATGGAGACCGTGCTGGCTTCTTAATAGGCGATGGTGCTGGTGTGGGTAAAGGCCGGACAATAGCAGGGATCATATATG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
26
Interacting miRNAs (#binding sites)
mmu-miR-124-3p(1), mmu-miR-9-5p(1), mmu-miR-199a-5p(1), mmu-miR-181a-5p(1), mmu-miR-29a-3p(1), mmu-miR-29c-3p(1), mmu-miR-298-5p(1), mmu-miR-216a-5p(1), mmu-miR-138-5p(1), mmu-miR-181b-5p(1), mmu-miR-381-3p(1), mmu-miR-136-5p(1), mmu-miR-434-5p(1), mmu-miR-127-5p(1), mmu-miR-501-3p(1), mmu-miR-96-5p(1), mmu-miR-467b-5p(1), mmu-miR-541-5p(1), mmu-miR-384-3p(1), mmu-miR-466a-5p(1), mmu-miR-1187(1), mmu-miR-466p-5p(1), mmu-miR-129-5p(1), mmu-miR-207(1), mmu-miR-335-3p(1), mmu-miR-544-5p(1)
siRNAs for circular RNA silencing
Junction sequence
CAGCGGATTGTAGCAACATGAAACAT
siRNA sets
TTCATGTTGCTACAATCCG, TTTCATGTTGCTACAATCC, TCATGTTGCTACAATCCGC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCSBNO1_3127_ORF_1
0.9124
0.150948972
0.999999837
2592
ORF sequence:
ATGGCCTACATGAACCGTCTTGGAATATGGGGTGAGGGAACTCCATTCAGAGAATTTAGTGATTTTATCCAAGCTGTGGAACGCAGAGGTGTTGGTGCCATGGAAATCGTTGCTATGGATATGAAGCTTAGAGGAATGTACATTGCACGGCAGCTGAGCTTTACTGGAGTGACCTTCAAAATTGAGGAAGTTCTTCTTTCTCAAAGCTATGTGAAAATGTATAACAAAGCAGTCAAGCTGTGGGTTATCGCTAGAGAGCGATTTCAACAAGCTGCAGATTTGATTGATGCTGAGCAGAGAATGAAGAAATCGATGTGGGGTCAGTTCTGGTCTGCTCACCAGAGGTTTTTTAAGTACCTGTGTATAGCATCCAAAGTGAAAAGGGTGGTGCAGCTGGCTCGGGAAGAGATCAAGAACGGGAAGTGTGTTGTAATTGGTCTTCAGTCTACAGGAGAAGCCAGAACTTTAGAGGCCTTGGAAGAGGGAGGAGGAGAACTAAATGATTTTGTTTCAACTGCCAAAGGGGTATTGCAGTCACTGATTGAAAAACACTTCCCTGCTCCAGACAGGAAGAAACTTTATAGTTTGCTAGGAATCGATTTGACAGCCCCAAGTAACAACAGTTCACCAAGAGATAGTCCTTGTAAAGAAAATAAAATAAAGAAGCGGAAAGGTGAAGAAATCACTCGAGAAGCCAAAAAAGCACGAAAAGTTGGTGGCCTCACAGGAAGCAGCTCTGACGACAGTGGAAGTGAGTCTGTGTCTGATAATGACGAAAGCGACTATGAGAGCTCTAAAAACATGAGCTCTGGGGATGATGACGATTTCAATCCCTTCAGAGATGAGTCCAGTGAAGACAATGAGGATGATCCGTGGTTAATTAGGAAAGACCATAAGAAAAGCAAAGATAAAAAAAAGAAGAAAAGTATAGATCCAGATTCCATTCAAAGTGCCTTGTTAGCATCAGGTCTTGGATCAAAGCGGCCTAGTTTCTCCTCTGCACCAGTCATCTCGCCTGCTTCCAACAGTGCACCAGCCAACAGTAACAGCAACAGCAACAGCAGCCTTGTAACAAGTCAAGATGCTGTCGAAAGGGCGCAACAGATGAAGAAAGACCTGCTTGATAAACTAGAAAAATTGGCTGAAGACCTCCCTCCTAACACCCTGGATGAACTTATCGATGAACTTGGTGGTCCTGAAAATGTGGCTGAGATGACTGGCCGCAAAGGGCGGGTAGTGAGCAATGATGACGGAAGCATATCCTACGAGTCGAGGTCTGAACTTGATGTGCCTGTGGAGATTCTAAACATCACAGAGAAGCAAAGGTTCATGGATGGAGACAAGAATATTGCTATTATCTCAGAAGCTGCCAGCTCAGGTATTTCATTACAAGCAGATCGGAGAGCTAAAAACCAAAGGCGAAGAGTTCACATGACTTTAGAATTACCTTGGAGTGCTGATAGGGCGATTCAGCAGTTTGGAAGAACACACAGGTCAAACCAAGTGACTGCTCCAGAGTATGTTTTTTTGATTTCGGAACTGGCTGGAGAACAGAGATTTGCATCTATTGTTGCTAAAAGACTTGAGAGTTTGGGGGCACTTACACATGGTGACAGAAGAGCAACAGAATCTAGAGATCTGAGCAGATTCAACTTTGACAACAAGTATGGAAGAAATGCTTTAGAAATTGTTATGAAATCCATTGTAAACTTGGATTCTCCTATGGTATCACCACCTCCAGACTACCCTGGAGAATTCTTTAAAGACGTTCGGCAAGGACTGATAGGAGTGGGCTTGATTAATGTAGAGGATCGCTCAGGAATTCTTACTCTTGATAAAGACTATAACAATATAGGAAAGTTCTTAAACAGAATCCTGGGCATGGAGGTGCATCAGCAGAATGCGCTGTTTCAGTATTTTGCAGACACACTTACTGCAGTTGTTCAGAATGCCAAGAAGAACGGAAGATACGACATGGGAATCCTAGATCTGGGTTCTGGAGATGAGAAGGTGAGGAAGAGTGATGTCAAGAAGTTTCTAACTCCAGGGTATTCAACCTCCGGCCATGTAGAGTTATACACGATTAGTGTGGAGAGGGGAATGTCCTGGGAGGAAGCAACCAAGATTTGGGCAGAGCTGACTGGACCAGATGATGGCTTTTACTTATCATTGCAGATAAGAAACAACAAAAAAACTGCAATCTTAGTTAAAGAAGTAAACCCTAAGAAGAAACTATTTTTAATTTACCGACCAAACACTGGGAAGCAACTCAAATTAGAAATTTATGCTGACCTGAAAAAGAAATATAAGAAGGTAGTTTCTGATGACGCCCTGGTACACTGGCTGGATCAGTATAACTCCTCTGCAGACACCTGTACTCACGCATACTGGCGTGGCAATTGCAAAAAAGCAAGTTTAGGATTGGTATGTGAGATTGGTCTCCGCTGCCGCACGTACTATGTACTGTGTGGCTCAGTACTGAGCGTCTGGACAAAAGTGGAAGGTGTTCTGGCCTCTGTCAGCGGCACAAATGTGAAAATGCAGATAGTGCGGCTAAGGACCGAAGATGGGCAGCGGATTGTAGCAACATGA
Peptide sequence:
MAYMNRLGIWGEGTPFREFSDFIQAVERRGVGAMEIVAMDMKLRGMYIARQLSFTGVTFKIEEVLLSQSYVKMYNKAVKLWVIARERFQQAADLIDAEQRMKKSMWGQFWSAHQRFFKYLCIASKVKRVVQLAREEIKNGKCVVIGLQSTGEARTLEALEEGGGELNDFVSTAKGVLQSLIEKHFPAPDRKKLYSLLGIDLTAPSNNSSPRDSPCKENKIKKRKGEEITREAKKARKVGGLTGSSSDDSGSESVSDNDESDYESSKNMSSGDDDDFNPFRDESSEDNEDDPWLIRKDHKKSKDKKKKKSIDPDSIQSALLASGLGSKRPSFSSAPVISPASNSAPANSNSNSNSSLVTSQDAVERAQQMKKDLLDKLEKLAEDLPPNTLDELIDELGGPENVAEMTGRKGRVVSNDDGSISYESRSELDVPVEILNITEKQRFMDGDKNIAIISEAASSGISLQADRRAKNQRRRVHMTLELPWSADRAIQQFGRTHRSNQVTAPEYVFLISELAGEQRFASIVAKRLESLGALTHGDRRATESRDLSRFNFDNKYGRNALEIVMKSIVNLDSPMVSPPPDYPGEFFKDVRQGLIGVGLINVEDRSGILTLDKDYNNIGKFLNRILGMEVHQQNALFQYFADTLTAVVQNAKKNGRYDMGILDLGSGDEKVRKSDVKKFLTPGYSTSGHVELYTISVERGMSWEEATKIWAELTGPDDGFYLSLQIRNNKKTAILVKEVNPKKKLFLIYRPNTGKQLKLEIYADLKKKYKKVVSDDALVHWLDQYNSSADTCTHAYWRGNCKKASLGLVCEIGLRCRTYYVLCGSVLSVWTKVEGVLASVSGTNVKMQIVRLRTEDGQRIVAT
IRESfinder result
IRESfinder score
0.533684649
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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