GgaINT0145723 @ galGal3
Intron Retention
Gene
ENSGALG00000002672 | SBNO2
Description
NA
Coordinates
chr28:2422402-2423150:-
Coord C1 exon
chr28:2423017-2423150
Coord A exon
chr28:2422493-2423016
Coord C2 exon
chr28:2422402-2422492
Length
524 bp
Sequences
Splice sites
5' ss Seq
TTGGTAAGT
5' ss Score
10.47
3' ss Seq
GCCCACGTCTTGCTTTGCAGGTT
3' ss Score
10.18
Exon sequences
Seq C1 exon
CAACATGAAGTTTTATTACCCAATGGGCAGCGAGCTGGCTTCCTCATCGGGGACGGTGCTGGAGTTGGAAAGGGCAGGACAGTTGCGGGCATCATCTTTGAAAATTATCTTAAAGGGAGAAAAAAAGCTCTTTG
Seq A exon
GTAAGTTGGGTTTTTTTTCCCCTCTTTTCCCGTAAGACCTCGGAGTTAGTGTGAATCTGGGAGTAAGGAATTCCTTAATGCTGATGTTGGCTTTGTAGTTGACTCATGTTGTGGCCTTGGGTAAGTGTTTTCCACCTCTTTGTGCCTGTTTGCTCTCTGTGAAATGGGAATATTTCCCCTGCAGCGGTGATGGAGAATGAATCACTCTGAAACGGCAAATTGTGTACTCCTCAGAGTGCAGTGTGAAGCCTCTTCCTACTCCTCTGAAGTCGGTGGAGGGATATTCATGGACTTCCCAGGTGCAGACTTGAGCCCCTACAGTATGGGGCTTTACTGCAGAATAGACACAGCTTGTCATAAGTGCCAGACCAGAGTCTGCTGTAGGATCTTACGTTGAGGTGTGTGGGCAGTGGGAAATGTGACAGTTTTATACACCTACAATTGCTTTAGTCAGAGCTGTTAATCACTGTGCGTGCCCCGACTCTCTCCTTAGGAGATAACCAGGCCCACGTCTTGCTTTGCAG
Seq C2 exon
GTTCAGCGTCTCCAATGATCTCAAGTATGATGCTGAGAGAGACCTGAAGGACATTGAAGCCTCCCACATTCCTGTGCATGCTTTGAATAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002672:ENSGALT00000004211:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.011 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF138721=AAA_34=PD(45.3=95.6)
A:
NA
C2:
PF138721=AAA_34=FE(10.1=100)
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:
CAACATGAAGTTTTATTACCCAATGG
R:
ATTCAAAGCATGCACAGGAATGTG
Band lengths:
222-746
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]