DreINT0158001 @ danRer10
Intron Retention
Gene
ENSDARG00000001994 | stxbp1a
Description
syntaxin binding protein 1a [Source:ZFIN;Acc:ZDB-GENE-050626-106]
Coordinates
chr21:13803060-13803333:+
Coord C1 exon
chr21:13803060-13803167
Coord A exon
chr21:13803168-13803272
Coord C2 exon
chr21:13803273-13803333
Length
105 bp
Sequences
Splice sites
5' ss Seq
TCAGTAAGT
5' ss Score
9.14
3' ss Seq
GTTTTCCCTCACACGCACAGGGA
3' ss Score
5.92
Exon sequences
Seq C1 exon
GTATGACACCAGTGGAATAGGAGACTCTCGTGAGAAGGAGGTGCTCCTTCATGAAGATGATGATCTCTGGGTTGCCCTACGACACAAACATATCGCTGAGGTCTCTCA
Seq A exon
GTAAGTAAAGACAGATATTTTTCAACTTGAAGTTTTTGTTTTCCTGTAATATTTGCCATCTGATATGTTAACATTGCTGTTTTCTGTTTTCCCTCACACGCACAG
Seq C2 exon
GGAGGTGACGCGCTCCCTAAAGGAGTTTTCTGCCAGCAAACGCATGAACACTGGAGAGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000001994:ENSDART00000015629:10
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.108 A=NA C2=0.476
Domain overlap (PFAM):
C1:
PF0099518=Sec1=FE(6.5=100),PF140711=YlbD_coat=FE(31.9=100)
A:
NA
C2:
PF0099518=Sec1=FE(3.6=100),PF140711=YlbD_coat=FE(17.7=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:
ACCAGTGGAATAGGAGACTCTCG
R:
CTTCTCTCCAGTGTTCATGCGT
Band lengths:
162-267
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]