GgaINT0112629 @ galGal3
Intron Retention
Gene
ENSGALG00000012751 | STAB2
Description
NA
Coordinates
chr1:56860996-56861617:-
Coord C1 exon
chr1:56861459-56861617
Coord A exon
chr1:56861101-56861458
Coord C2 exon
chr1:56860996-56861100
Length
358 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGG
5' ss Score
11.08
3' ss Seq
TATATTGCTGTGTTTTATTGAAA
3' ss Score
-0.47
Exon sequences
Seq C1 exon
GCTGAGTGCATTCAAACAGGCCCAGGAAGGCATGTGTGCGCTTGCCAGGCAGGATGGACAGGCGATGGACGGGACTGCTCAGCCATCAACAACTGCCTACTGCCCTCTGTAGCTGGATGCCATGAAAATGCCACTTGCATATACGTTGGGCCTGGTCAG
Seq A exon
GTAAGGCCTCACATTCTTCTCACTTTCTGCACCAGTTCTCACCCGTTTTCTTCTGCTGGCACTTCCTGCCCTCATTCATCCCCAGGCTCTCCTCTCCCTCCAGGCCACATGCTCATTTCCACACAAAACAGCCTCCCACAGCTCCCATTCCATTTTTTTGCTATGTGTTATTTCTCCAGGAGCAAAGACTGTAAAGTAAGTACGTTAGGTGTCTAGCATGAAGGTCTACTGGAGGTATTAGTCAGTCACATTCCACTGAAGTCACTGGAGCTATGCAGGAACACAGACAGACTTATCTGCCAACGTCTAGAATACGTACACAGTTTTAATCATTATAATATATTGCTGTGTTTTATTG
Seq C2 exon
AAACAACAGAATGACTGCAAGTGTAAAGATGGATTTAGGGGGAATGGAATTGAATGTACACCCATAAACTCATGCCTGGAACAAAATGGAAAATGCCATCATCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000012751:ENSGALT00000020806:24
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:
PF129472=EGF_3=PD(65.8=47.2),PF129472=EGF_3=PU(45.9=32.1)
A:
NA
C2:
PF129472=EGF_3=PD(48.6=51.4),PF129472=EGF_3=PU(27.0=28.6)
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:
GCTGAGTGCATTCAAACAGGC
R:
GATGATGGCATTTTCCATTTTGTTCC
Band lengths:
262-620
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]