RnoINT0145659 @ rn6
Intron Retention
Gene
ENSRNOG00000020392 | Stxbp3
Description
syntaxin binding protein 3 [Source:RGD Symbol;Acc:619968]
Coordinates
chr2:211600766-211602696:-
Coord C1 exon
chr2:211602604-211602696
Coord A exon
chr2:211600852-211602603
Coord C2 exon
chr2:211600766-211600851
Length
1752 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAAA
5' ss Score
7.3
3' ss Seq
TTAATAATTTTCTTCCCTAGGAT
3' ss Score
12.01
Exon sequences
Seq C1 exon
TCCCAACAAGCCAAACCACCAAGAAAAGATCGGTCTGCCGAAGAGACTTTTCAGCTTTCTCGATGGACACCTTTTATCAAAGATATCATGGAG
Seq A exon
GTAAAAGTCCCCACCTCCCTGCTACCCCACTGCCTCCTGTGGGTTATTCTTTCCACTCAGGTCATCTGCCACTGCAGCATGGCTCACAGGCAGGAGCTCTGGAGGGCCTGGGAAGTTCACAGAGGACAGCCATCTGTATCTGGTAGGATTTTATAGGCAAAGAAGTTTCGTGAAGTCTTAAGGACCCCCAAAAATTCTCCACTATCTATAAATAAATAATAAAACTCTGCACACACATGCTTCATGAAAAGTCACTGGGTGAATATGCTGTTAGTGCTGCTTGCTCTTAAGAAAATAATATTAATTTGTAGGAATTATAAACTGAATTTTAAAATTGCCGTAGGAACTAAGTGAAAAACATTCATTGTAGCTTTCCTCTGACTAATTATAGTTCTAATTTCTACTTTCCTTTATGTGCTAATGATTTTACTGTTTTTCTATTTTTCAAAGTTGTCTGTCATGTTCAAATGCATGAACATATTTGAAAAGTCTCTAAAGAACTTAGACTTTGTCTTCTGTAATGTAGGTCACCTCCCACCCCCGCATAATTTTCAGAAGTAGTTTTTCTTTTCTTTTTAAGATTTATTTTATGTATATGAGTACACTGTCGCTGTCTTCAGACACACCACAAGAGGGCTTCAGCTCTTATTACAGATGGTTGTGAGCTACCATGTGGTGGCTGGGAGTTGAACTCAGGACCTCTGGAAGAGCAGTCAGTGCTCTTAACCACTGAGCCATCTCTTAACCTCTCCCTCCCCAACCCCCCAAGCCAAATAGTTTTTCTTATAATTGTTAATGGCTTTTAAAATAAAAATCAACCTGTTTAAACTCTCTAACAAGGTTTGCATGCTAAATCCAGAGACTGCACTTTGGATCTGTGGCCATCTCAGGCTTTTAGGATTTCTCCTAACAGTGAACCCTCCTCTGGCAGTCATAGTAAAACCTTCCTGAGTTGCTTTTCCTTCTCGTGTCTGCTTTTGAGTGCCTTTGTGCTGTCATCTATAAAGCAAGTTGAGTGGCTAATAGAAAGTATAACCATAACCAATTATGAACATGACCTATTGATTGACCAAATATGTATTACTGTTTAATAAAGCATTCATAGTCTGTTTATTCATCATAAGCATATGCAAAAAGTGTATCATAAAACACAGCGCTGAGAAAATAAACAGGAAAACATTCTGCAGTCATTGGACTGTCTTCAGTGTCTCAAGGTTAGCTGTGTGCATTCTTTTTTTGGGGAGCTGCTATGAAGGACAGTGGCCTGTGGTGCCCTTGAGAAACCTGTAGCTTCCCTAGAGCTGAAAGGTCCTCATAGTATTGCAGAACCTTCCAGTAAAGAAAGGCAGATCTGAAATGCATGTTTAATATGCAAGTAAACTAGTACATTAATTTTTACATTTCTCTTTGTTATTTTAACTATGCGTGTCTATGTGGGTATGTGCACATGAGTGCAGGTGTCCATGGAAGACAGAGAAGCATTGAGCTCTGAAGCTGGAGTTCCAGGCCATTGTGAGCTCCATGAAGTGGGTGCTGGGAACTGAATTTCAATCCTCCAGAAGGACTGTGATGCCCTTAACCACTGAGCCATCTCTCTAGTCCTCATGTATTGATTTTGACTGCAGTTAGTATTCATAGGTGTAAAGAAGGGCTAGTCTTACTTAATATTTATGCCCCTTTAATGTTCATCAAGGTGTGTATGAAACAAATTCCCTAAACTTTCCTGATGGTGTTAATAATTTTCTTCCCTAG
Seq C2 exon
GATGCCATTGATAATAGATTGGATTCCAAAGAATGGCCATACTGTTCCCGGTGCCCAGCGGTGTGGAATGGCTCTGGAGCTGTAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000020392:ENSRNOT00000027666:16
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.452 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0099518=Sec1=FE(5.5=100)
A:
NA
C2:
PF0099518=Sec1=FE(5.1=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]