GgaINT0020595 @ galGal3
Intron Retention
Gene
ENSGALG00000001535 | STAB1
Description
NA
Coordinates
chr12:618736-619150:+
Coord C1 exon
chr12:618736-618847
Coord A exon
chr12:618848-619072
Coord C2 exon
chr12:619073-619150
Length
225 bp
Sequences
Splice sites
5' ss Seq
GGTGTAAGA
5' ss Score
3.6
3' ss Seq
TCTCTCTGATAATTTTGCAGGTA
3' ss Score
9.81
Exon sequences
Seq C1 exon
GGCCCACTTTCTTGAAGGTGTCTTCACTGATGAAAAGCTCAAAAAGTACGACAGGCCAGAATTACCCACCCTCAACCCACGGACCAGATGGCAGATAAACACTGAGAGCGGT
Seq A exon
GTAAGAGTTTCTTCTATAATGAGCATATGCCAGCATCAAATTAAACCTCTCAAGAACTGCTGTAACCAGTGGAGAACCTAGCTGGGTCACTGGTGGATTCCAACAGAGGAATCTTCTAAAAACTGCACCCAGATTAATTGTGCGCAGCCTTGAACAATGTGTGTCTGGTTTGCACGTGCCTGGTGATTTCTGATGCTTCTGCTTCTCTCTCTGATAATTTTGCAG
Seq C2 exon
GTATTCACCATTCAGAATGCAAGTCTTGTTGTCAGTAACATCCCTGCCAGCAATGGCATCATTCATATACTCAGCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000001535:ENSGALT00000002333:32
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.053 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0246917=Fasciclin=FE(30.1=100)
A:
NA
C2:
PF0246917=Fasciclin=FE(20.3=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGCCCACTTTCTTGAAGGTGT
R:
TGCTGAGTATATGAATGATGCCA
Band lengths:
188-413
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]