DreINT0158013 @ danRer10
Intron Retention
Gene
ENSDARG00000001994 | stxbp1a
Description
syntaxin binding protein 1a [Source:ZFIN;Acc:ZDB-GENE-050626-106]
Coordinates
chr21:13791518-13792605:+
Coord C1 exon
chr21:13791518-13791596
Coord A exon
chr21:13791597-13792501
Coord C2 exon
chr21:13792502-13792605
Length
905 bp
Sequences
Splice sites
5' ss Seq
ACTGTGAGT
5' ss Score
7.94
3' ss Seq
ATGCTTCAAATGTTTTTCAGCTT
3' ss Score
7.73
Exon sequences
Seq C1 exon
TCTGTGCAGACTCTCATCAATGACTTCAAAGACCCCCATTCAGCCAAGTATAAAGGAGCTCATGTGTTCTTCACTGACT
Seq A exon
GTGAGTATCAGAGGGTTCTTCACTGCACTTCAAGGGCCCTGCAAGTGTAGTATGCACTACAGCATTAATGTGACTATGCTCAATACAACACCACTAGACCATCACTCAGCAAGATGAGTATTTTATGAATCTTATTTTAAAACAATGAAGTGTTAGACAGAAAGATGTCTGAAACTATTGGTTTGGGATACTAAACAACACATATGAATAAATCTGTAATAAAATTAATCCTTATAGATTTTAAGGCTTTGTATAATACATTTATATATTTTTTCTAGATACCTTTCTTGTCATAAACAATTATGCATACACATCTAATGTAGTATAAATAAAATAAGATTTTTTAAAATAATCTAAAATGTATTTAAGTCATGATTTTGTTTATATTTATTATTTGTTTTATTATTTATTATTTTATTTATTATTTTTAAAATTATTTAGATTTGCACTGTATTATAATGTTCGTATGATTTGTATGGTTTGTATAAAATATCCAAAAATAAATAAACATTATATTTGTATATATAAAATATATAATATATAATAACTGTATTATAATAAACATTAAACTCCTTCATATGTTTTATGATTTTTAAATGTATACAATATTCTGCATGTTTATATTTTAGAATTTTATTATTTATGTTATATATTATTATAAAATTACAATAAACCATGTTTATACATTACAATAAAAAAAACTAAAATATAGTAATAGGTAAAACTTTTACAGTTCTGTCAAATGTATATAAAATCATATGTTTTGTGTATATTTATTCTTTTATCAAAAATAAAAATTAAATATATTTTATACACTACAAAGCAAAAATAAAATATAGTAATATGTGAAGTTTAACATGTGTAACCTTTAACACAGTGCTGTCAATGCTTCAAATGTTTTTCAG
Seq C2 exon
CTTGCCCTGACCCCCTGTTTAATGAAGTGGTGAAGAGCCGTGCCTCCAAAACCATTAAAACCCTAAATGAGATCAACATCGCCTTCCTGCCCTACGAGTCCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000001994:ENSDART00000015629:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0099518=Sec1=FE(4.7=100)
A:
NA
C2:
PF0099518=Sec1=FE(6.1=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGTGCAGACTCTCATCAATGACT
R:
CTGGGACTCGTAGGGCAGG
Band lengths:
182-1087
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]