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mmu_circStxbp4_856
Basic information of circular RNA
PanCircBase ID:
mmu_circStxbp4_856
mm39_Chr. Position ID:
chr11|90485570|90512608|-
Gene name:
Stxbp4
Transcript:
ENSMUST00000143203.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
7
Exon/intron indexes:
9,8,7,6,5,4,3
Exon/intron offsets:
0,5441,11208,12223,12600,24438,26910
Genomic length:
27038
Exon/intron sizes in nt:
9,79,57,92,17,10,71,33,000
Flanking exon/introns:
chr11:90483249-90485570|chr11:90512608-90513017
Splice length:
856
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
CCTGAGGATAAAAAGAATATTTAGACTCTCCAAGTTCTTCCTTTACATAGCTGCTAAATCCAAGGAAACTGTGTCGAAAGCATGAGTGATGGTACAGCTTCTGCCCGATCATCCAGCCCACTTGACAGGGATCCTGCCTTTCGGGTGATTACAGTTACTAAGGAAACAGGTCTAGGTCTGAAGATCCTAGGCGGAATTAACAGGAATGAAGGACCGCTGGTGTATATTCACGAAGTCATTCCTGGAGGTGACTGTTACAAGGATGGACGTTTGAAGCCAGGAGATCAACTTGTCTCAATAAACAAGGAATCTATGATTGGTGTATCATTTGAAGAAGCAAAAAGCATAATTACCAGAGCCAAGTTGAGGTCAGAATCTCCCTGGGAGATAGCATTCATCAGACAAAAGTCTTACTGTGGCCATCCAGGAAATATTTGCTGTCCATCCCCACAAGTGTCAGAAGACTGTGGACCTCAAACCTCAACATTTACTCTTCTTTCCTCTCCCTCTGAAACACTACTTCCAAAGACTTCATCCACTCCCCAGACTCAGGACTCCACTTTCCCTTCTTGTAAAGCAATTCAGACAAAACCTGAACACGATAAAACAGAACATAGTCCAATTACTTCTTTGGACAACAGCCCTGCAGATACATCTAATGCAGACATTGCTCCAGCCTGGACTGATGATGATTCTGGACCACAAGGAAAGATTTCCCTAAATCCTTCTGTTCGCCTTAAGGCAGAGAAACTGGAAATGGCTCTCAATTACCTCGGTATACAGCCAACAAAGGAACAACGTGAAGCCCTGAGAGAGCAAGTCCAGGCCGACTCAAAGGGGACTGTGTCTTTTGGAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ACAACGTGAAGCCCTGAGAG
59.97
AGCTGTACCATCACTCATGCT
59.16
161
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CTGAGAGAGCAAGTCCAGGC
60.11
AGCTGTACCATCACTCATGCT
59.16
148
PCR template sequence:
ATGGCTCTCAATTACCTCGGTATACAGCCAACAAAGGAACAACGTGAAGCCCTGAGAGAGCAAGTCCAGGCCGACTCAAAGGGGACTGTGTCTTTTGGAGCCTGAGGATAAAAAGAATATTTAGACTCTCCAAGTTCTTCCTTTACATAGCTGCTAAATCCAAGGAAACTGTGTCGAAAGCATGAGTGATGGTACAGCTT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
6
Interacting miRNAs (#binding sites)
mmu-miR-205-5p(1), mmu-miR-132-3p(1), mmu-miR-212-3p(1), mmu-miR-194-5p(1), mmu-miR-362-5p(1), mmu-miR-3061-5p(1)
siRNAs for circular RNA silencing
Junction sequence
GTGTCTTTTGGAGCCTGAGGATAAAA
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCSTXBP4_856_ORF_1
1.0618
0.045919422
0.924696416
780
ORF sequence:
ATGAGTGATGGTACAGCTTCTGCCCGATCATCCAGCCCACTTGACAGGGATCCTGCCTTTCGGGTGATTACAGTTACTAAGGAAACAGGTCTAGGTCTGAAGATCCTAGGCGGAATTAACAGGAATGAAGGACCGCTGGTGTATATTCACGAAGTCATTCCTGGAGGTGACTGTTACAAGGATGGACGTTTGAAGCCAGGAGATCAACTTGTCTCAATAAACAAGGAATCTATGATTGGTGTATCATTTGAAGAAGCAAAAAGCATAATTACCAGAGCCAAGTTGAGGTCAGAATCTCCCTGGGAGATAGCATTCATCAGACAAAAGTCTTACTGTGGCCATCCAGGAAATATTTGCTGTCCATCCCCACAAGTGTCAGAAGACTGTGGACCTCAAACCTCAACATTTACTCTTCTTTCCTCTCCCTCTGAAACACTACTTCCAAAGACTTCATCCACTCCCCAGACTCAGGACTCCACTTTCCCTTCTTGTAAAGCAATTCAGACAAAACCTGAACACGATAAAACAGAACATAGTCCAATTACTTCTTTGGACAACAGCCCTGCAGATACATCTAATGCAGACATTGCTCCAGCCTGGACTGATGATGATTCTGGACCACAAGGAAAGATTTCCCTAAATCCTTCTGTTCGCCTTAAGGCAGAGAAACTGGAAATGGCTCTCAATTACCTCGGTATACAGCCAACAAAGGAACAACGTGAAGCCCTGAGAGAGCAAGTCCAGGCCGACTCAAAGGGGACTGTGTCTTTTGGAGCCTGA
Peptide sequence:
MSDGTASARSSSPLDRDPAFRVITVTKETGLGLKILGGINRNEGPLVYIHEVIPGGDCYKDGRLKPGDQLVSINKESMIGVSFEEAKSIITRAKLRSESPWEIAFIRQKSYCGHPGNICCPSPQVSEDCGPQTSTFTLLSSPSETLLPKTSSTPQTQDSTFPSCKAIQTKPEHDKTEHSPITSLDNSPADTSNADIAPAWTDDDSGPQGKISLNPSVRLKAEKLEMALNYLGIQPTKEQREALREQVQADSKGTVSFGA
IRESfinder result
IRESfinder score
0.71895983
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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