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mmu_circStxbp5_1715
Basic information of circular RNA
PanCircBase ID:
mmu_circStxbp5_1715
mm39_Chr. Position ID:
chr10|9665106|9719105|-
Gene name:
Stxbp5
Transcript:
ENSMUST00000038213.14
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
15
Exon/intron indexes:
19,18,17,16,15,14,13,12,11,10,9,8,7,6,5
Exon/intron offsets:
0,8759,10580,19057,19666,22305,22602,22897,26888,27943,36007,46471,48714,52508,53864
Genomic length:
53999
Exon/intron sizes in nt:
66,152,126,179,221,41,68,148,73,155,79,124,84,64,135
Flanking exon/introns:
chr10:9660144-9665106|chr10:9719105-9740756
Splice length:
1715
Other database IDs:
circAtlas: mmu-Stxbp5_0003
circBase: hsa_circ_0078165, circAtlas: hsa-STXBP5_0003, CIRCpedia: HSA_CIRCpedia_53833
Human Ortholog IDs:
Mature spliced Sequence:
GGTTACATTTTGCCATCTGCCTTTCCAGAGTAAGTGGCTCTATGTGGGCACTGAGCGAGGAAACATACACATTGTTAATGTGGAGTCCTTCACACTCTCAGGCTATGTCATTATGTGGAATAAAGCCATCGAACTGTCATCTAAAGCTCACCCAGGACCAGTTGTGCATATAAGTGACAATCCCATGGACGAGGGGAAGCTTTTGATTGGCTTCGAATCTGGAACAGTAGTCTTATGGGACCTCAAGTCAAAGAAGGCTGACTACAGATACACATACGACGAGGCTATTCACTCTGTGGCTTGGCATCATGAAGGAAAACAATTTATTTGCAGTCATTCTGACGGTACTTTGACCATATGGAATGTGAGATCCCCTGCTAAACCTGTACAGACCATCACTCCTCACGGAAAACAGTTGAAGGATGGGAAGAAGCCAGAGCCATGCAAGCCTATCCTGAAGGTGGAGTTGAAGACAACAAGATCCGGGGAACCTTTTATTATTTTGTCAGGAGGCTTATCCTATGATACCGTGGGAAGAAGACCCTGCTTAACAGTGATGCACGGGAAAAGCACAGCAGTGCTGGAAATGGACTATTCAATCGTTGACTTTCTCACACTCTGTGAAACGCCATATCCAAACGATTTTCAGGAACCATATGCTGTGGTTGTTCTCCTGGAAAAGGACTTAGTGCTGATAGACCTTGCACAAAATGGATACCCTATATTTGAGAATCCCTACCCTTTGAGTATACACGAGTCCCCTGTTACATGTTGTGAATATTTTGCTGATTGTCCTGTGGATCTTATTCCTGCACTTTACTCTGTTGGAGCTAGACAGAAGCGTCAAGGTTACAGCAAAAAGGAATGGCCCATCAATGGTGGTAATTGGGGCTTGGGTGCTCAAAGTTACCCAGAAATAATTATTACAGGGCATGCTGATGGCTCGGTGAAATTCTGGGACGCTTCTGCAATAACTCTACAAGTACTATATAAATTAAAAACATCTAAAGTATTTGAGAAGTCAAGAAACAAAGATGACAGACAGAACACAGACATTGTAGATGAAGATCCATATGCCATTCAGATCATCTCCTGGTGCCCAGAGAGCAGGATGCTGTGCATAGCTGGAGTGTCAGCCCATGTCATCATCTATAGATTCAGCAAGCAGGAAGTGCTTACCGAAGTCATCCCGATGCTTGAAGTTCGACTGTTATATGAAATAAATGATGTGGATACTCCAGAGGGTGAGCAGCCCCCGCCTCTGTCCACCCCCGTGGGCAGCTCCAACCCTCAGCCCATTCCTCCTCAGTCTCATCCGTCTACCAGCAGCAGCTCATCTGACGGGCTTCGTGATAACGTTCCTTGCTTAAAAGTTAAAAACTCCCCACTTAAGCAGTCTCCAGGCTATCAGACAGAGCTGGTCATTCAGTTGGTGTGGGTGGGTGGAGAACCCCCGCAGCAGATCACCAGCCTGGCACTCAACTCTTCCTATGGACTGGTGGTTTTCGGCAACTGTAACGGCATCGCAATGGTTGACTACCTCCAGAAAGCAGTACTGCTCAACCTCAGCACCATCGAACTTTACGGCTCAAATGATCCTTATCGGAGAGAACCTCGCTCGCCCCGAAAATCCCGACAGCCTTCAGGAGCGGGCCTGTGTGATATCACCGAAGGGACTGTCGTCCCGGAGGATCGCTGCAAATCTCCCACTTCCG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AAATCCCGACAGCCTTCAGG
60.04
CTCAGTGCCCACATAGAGCC
60.18
143
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AAATCCCGACAGCCTTCAGG
60.04
CGCTCAGTGCCCACATAGAG
60.53
145
PCR template sequence:
CGCTCGCCCCGAAAATCCCGACAGCCTTCAGGAGCGGGCCTGTGTGATATCACCGAAGGGACTGTCGTCCCGGAGGATCGCTGCAAATCTCCCACTTCCGGGTTACATTTTGCCATCTGCCTTTCCAGAGTAAGTGGCTCTATGTGGGCACTGAGCGAGGAAACATACACATTGTTAATGTGGAGTCCTTCACACTCTCA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
17
Interacting miRNAs (#binding sites)
mmu-miR-135a-5p(2), mmu-let-7a-5p(1), mmu-let-7b-5p(1), mmu-let-7c-5p(1), mmu-miR-298-5p(1), mmu-miR-184-3p(1), mmu-miR-196a-5p(1), mmu-miR-138-5p(1), mmu-let-7d-5p(1), mmu-miR-411-3p(1), mmu-miR-511-3p(1), mmu-miR-541-5p(1), mmu-miR-297a-5p(1), mmu-miR-98-5p(1), mmu-miR-673-5p(1), mmu-miR-574-5p(1), mmu-miR-296-3p(1)
siRNAs for circular RNA silencing
Junction sequence
TCTCCCACTTCCGGGTTACATTTTGC
siRNA sets
AAAATGTAACCCGGAAGTG, CAAAATGTAACCCGGAAGT, AAATGTAACCCGGAAGTGG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCSTXBP5_1715_ORF_1
0.7246
0.12038146
0.999911516
1776
ORF sequence:
ATGTGGAATAAAGCCATCGAACTGTCATCTAAAGCTCACCCAGGACCAGTTGTGCATATAAGTGACAATCCCATGGACGAGGGGAAGCTTTTGATTGGCTTCGAATCTGGAACAGTAGTCTTATGGGACCTCAAGTCAAAGAAGGCTGACTACAGATACACATACGACGAGGCTATTCACTCTGTGGCTTGGCATCATGAAGGAAAACAATTTATTTGCAGTCATTCTGACGGTACTTTGACCATATGGAATGTGAGATCCCCTGCTAAACCTGTACAGACCATCACTCCTCACGGAAAACAGTTGAAGGATGGGAAGAAGCCAGAGCCATGCAAGCCTATCCTGAAGGTGGAGTTGAAGACAACAAGATCCGGGGAACCTTTTATTATTTTGTCAGGAGGCTTATCCTATGATACCGTGGGAAGAAGACCCTGCTTAACAGTGATGCACGGGAAAAGCACAGCAGTGCTGGAAATGGACTATTCAATCGTTGACTTTCTCACACTCTGTGAAACGCCATATCCAAACGATTTTCAGGAACCATATGCTGTGGTTGTTCTCCTGGAAAAGGACTTAGTGCTGATAGACCTTGCACAAAATGGATACCCTATATTTGAGAATCCCTACCCTTTGAGTATACACGAGTCCCCTGTTACATGTTGTGAATATTTTGCTGATTGTCCTGTGGATCTTATTCCTGCACTTTACTCTGTTGGAGCTAGACAGAAGCGTCAAGGTTACAGCAAAAAGGAATGGCCCATCAATGGTGGTAATTGGGGCTTGGGTGCTCAAAGTTACCCAGAAATAATTATTACAGGGCATGCTGATGGCTCGGTGAAATTCTGGGACGCTTCTGCAATAACTCTACAAGTACTATATAAATTAAAAACATCTAAAGTATTTGAGAAGTCAAGAAACAAAGATGACAGACAGAACACAGACATTGTAGATGAAGATCCATATGCCATTCAGATCATCTCCTGGTGCCCAGAGAGCAGGATGCTGTGCATAGCTGGAGTGTCAGCCCATGTCATCATCTATAGATTCAGCAAGCAGGAAGTGCTTACCGAAGTCATCCCGATGCTTGAAGTTCGACTGTTATATGAAATAAATGATGTGGATACTCCAGAGGGTGAGCAGCCCCCGCCTCTGTCCACCCCCGTGGGCAGCTCCAACCCTCAGCCCATTCCTCCTCAGTCTCATCCGTCTACCAGCAGCAGCTCATCTGACGGGCTTCGTGATAACGTTCCTTGCTTAAAAGTTAAAAACTCCCCACTTAAGCAGTCTCCAGGCTATCAGACAGAGCTGGTCATTCAGTTGGTGTGGGTGGGTGGAGAACCCCCGCAGCAGATCACCAGCCTGGCACTCAACTCTTCCTATGGACTGGTGGTTTTCGGCAACTGTAACGGCATCGCAATGGTTGACTACCTCCAGAAAGCAGTACTGCTCAACCTCAGCACCATCGAACTTTACGGCTCAAATGATCCTTATCGGAGAGAACCTCGCTCGCCCCGAAAATCCCGACAGCCTTCAGGAGCGGGCCTGTGTGATATCACCGAAGGGACTGTCGTCCCGGAGGATCGCTGCAAATCTCCCACTTCCGGGTTACATTTTGCCATCTGCCTTTCCAGAGTAAGTGGCTCTATGTGGGCACTGAGCGAGGAAACATACACATTGTTAATGTGGAGTCCTTCACACTCTCAGGCTATGTCATTATGTGGAATAAAGCCATCGAACTGTCATCTAAAGCTCACCCAGGACCAGTTGTGCATATAA
Peptide sequence:
MWNKAIELSSKAHPGPVVHISDNPMDEGKLLIGFESGTVVLWDLKSKKADYRYTYDEAIHSVAWHHEGKQFICSHSDGTLTIWNVRSPAKPVQTITPHGKQLKDGKKPEPCKPILKVELKTTRSGEPFIILSGGLSYDTVGRRPCLTVMHGKSTAVLEMDYSIVDFLTLCETPYPNDFQEPYAVVVLLEKDLVLIDLAQNGYPIFENPYPLSIHESPVTCCEYFADCPVDLIPALYSVGARQKRQGYSKKEWPINGGNWGLGAQSYPEIIITGHADGSVKFWDASAITLQVLYKLKTSKVFEKSRNKDDRQNTDIVDEDPYAIQIISWCPESRMLCIAGVSAHVIIYRFSKQEVLTEVIPMLEVRLLYEINDVDTPEGEQPPPLSTPVGSSNPQPIPPQSHPSTSSSSSDGLRDNVPCLKVKNSPLKQSPGYQTELVIQLVWVGGEPPQQITSLALNSSYGLVVFGNCNGIAMVDYLQKAVLLNLSTIELYGSNDPYRREPRSPRKSRQPSGAGLCDITEGTVVPEDRCKSPTSGLHFAICLSRVSGSMWALSEETYTLLMWSPSHSQAMSLCGIKPSNCHLKLTQDQLCI
IRESfinder result
IRESfinder score
0.593029378
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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