GgaINT0020613 @ galGal3
Intron Retention
Gene
ENSGALG00000001535 | STAB1
Description
NA
Coordinates
chr12:630601-631040:+
Coord C1 exon
chr12:630601-630747
Coord A exon
chr12:630748-630902
Coord C2 exon
chr12:630903-631040
Length
155 bp
Sequences
Splice sites
5' ss Seq
GAGGTAGTT
5' ss Score
5.77
3' ss Seq
TTGCATCCCTTCTCTCTCAGAAT
3' ss Score
9.27
Exon sequences
Seq C1 exon
TTTGAGGAGTGGAAGAGCAGAGGTCTCCTCCAGGAGCTGCTTCGCTACCACATGGTGGGATGCCAGAAATTGCTGTTGAGTGACCTGGAAGCCCAGGAGTCCCTCACATCTTTATCTGGCCACACAATAAAGATCACCAAGAAAGAG
Seq A exon
GTAGTTTTCTGCCACCATTCCCTTCCCTGTCCTGCTTGACAGGTTGTCACTTTTGCTGTCGCTTGAAGGCCCAGTGGCTGTAACAAGTAATGCCCACGGACGGCTCAGAGGGCAGCGCCCCGCAGGAGCACCTCATTGCATCCCTTCTCTCTCAG
Seq C2 exon
AATAGCATCTATCTCAATGATGAAGCCAAAGTGGTCATGAGTGACATCGTCGGTGTGAACGGGGTCATTCATTTCATCAACAAGATCCTCATTCCAAGTGACCTGGTGAGCCGTAACATTTCCTCACAGATCTCACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000001535:ENSGALT00000002333:50
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:
PF0246917=Fasciclin=FE(40.0=100)
A:
NA
C2:
PF0246917=Fasciclin=PD(25.8=67.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTGGAAGAGCAGAGGTCTCCT
R:
TTACGGCTCACCAGGTCACTT
Band lengths:
255-410
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]