DreINT0158022 @ danRer10
Intron Retention
Gene
ENSDARG00000056036 | stxbp1b
Description
syntaxin binding protein 1b [Source:ZFIN;Acc:ZDB-GENE-060531-166]
Coordinates
chr5:28392650-28392951:+
Coord C1 exon
chr5:28392650-28392730
Coord A exon
chr5:28392731-28392812
Coord C2 exon
chr5:28392813-28392951
Length
82 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGG
5' ss Score
10.07
3' ss Seq
GTCTTTGCGCTTGGTCATAGGAT
3' ss Score
7.62
Exon sequences
Seq C1 exon
TACTCAACTCATCTGCACTTAGCAGAAGACTGCATGAAGCAGTACCAGGGCACAGTGGACAAACTGTGTCGTGTTGAGCAG
Seq A exon
GTGAGGCTTAACTATGATCTGTCTTTAAGCTCAAACCTTCATAATAATTAGGAGTTAATAGTGTCTTTGCGCTTGGTCATAG
Seq C2 exon
GATCTAGCTATGGGCACAGATGCGGAGGGTGAGAAGATTAAAGATCCCATGAGAGCCATTGTACCCATTCTACTGGACGCTACTGTCACCATCATGGACAAGATCCGCATCATCCTGCTCTATATTTTCCTCAAGAATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000056036:ENSDART00000005638:13
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=0.085
Domain overlap (PFAM):
C1:
PF0099518=Sec1=FE(4.7=100),PF140711=YlbD_coat=FE(26.0=100),PF0396210=Mnd1=FE(19.5=100)
A:
NA
C2:
PF0099518=Sec1=FE(8.3=100),PF140711=YlbD_coat=PD(1.0=2.1),PF0396210=Mnd1=FE(34.6=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:
CATGAAGCAGTACCAGGGCAC
R:
GCAGGATGATGCGGATCTTGT
Band lengths:
167-249
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]