DreINT0158025 @ danRer10
Intron Retention
Gene
ENSDARG00000056036 | stxbp1b
Description
syntaxin binding protein 1b [Source:ZFIN;Acc:ZDB-GENE-060531-166]
Coordinates
chr5:28395737-28396010:+
Coord C1 exon
chr5:28395737-28395841
Coord A exon
chr5:28395842-28395924
Coord C2 exon
chr5:28395925-28396010
Length
83 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGC
5' ss Score
8.7
3' ss Seq
TCCTAATTATTTCATAATAGGAT
3' ss Score
6.59
Exon sequences
Seq C1 exon
CAAGCAACCACACGCAAAGGGAAGAAATCTGACCGCAAGGAAAGGATCAGTGAGCAAACGTACCAGCTCTCCCGATGGACACCTCTGGTCAAAGACATCATGGAG
Seq A exon
GTGAGCTGAACCATCACTGCTTGTCTATCTTTCAAAACCCCAACATTCTTTTACCTCAAATTTTCCTAATTATTTCATAATAG
Seq C2 exon
GATGCCATTGAAGATAAACTCGACCCGAAACAGTACCCTTACATCTCCACACGAACAGTGTCCTCAAAAACCACCACAGCGACCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000056036:ENSDART00000005638:16
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.457 A=NA C2=0.207
Domain overlap (PFAM):
C1:
PF0099518=Sec1=FE(6.1=100)
A:
NA
C2:
PF0099518=Sec1=FE(5.0=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACCACACGCAAAGGGAAGAAA
R:
CGCTGTGGTGGTTTTTGAGGA
Band lengths:
180-263
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]