GgaINT0106909 @ galGal3
Intron Retention
Description
NA
Coordinates
chr1:183333436-183334193:-
Coord C1 exon
chr1:183333939-183334193
Coord A exon
chr1:183333557-183333938
Coord C2 exon
chr1:183333436-183333556
Length
382 bp
Sequences
Splice sites
5' ss Seq
AAGGTACTA
5' ss Score
7.52
3' ss Seq
TGTTGGTTTTCTTCTTAAAGATA
3' ss Score
7.06
Exon sequences
Seq C1 exon
AAGGATCAATATTCTCTCGAGTGGAAGAGGATTATCTATGGAGGATTAAACAGCTAGGATCACATTCGCCAGTTGCTCTTCTGAATACTCTGTTCTACTTTAACACCAAGTATTTTGGTCTGAAAACAGTGGAGCAGCACTTAAGACTTTCTTTTGGCACTGTTTTCAGACAGTGGAAAAAAAATCCTCTAACAATGGAAAGCAAAGCTTGTCTTCGATATCAGGTGTCTTCCCTGTGCAGAGCTGATAGTGAAG
Seq A exon
GTACTATGACAGTTCCAAAATAAGTATTGCAGGAACATCCACGTTTCACTCATCTGAGGGACATCTGGGCAGCTTGCCAGGAGCCAGAGGTCTGCCATTGCGTAAAGTTCAGTTCTTGGCTCTTGGGTCTTTAATGGGAGTGTGTTGTTGGGAGTACAGTGTCTCTGCATTAAATGATCCCTTTCAGCCCTCTGGTCTCCATGCTACGCACTGAGACTCTGATGTGGCTATGGGTTACGTTTCCAGTGCACAGGTAAATGTAGATGTGATGACTGTGCTGCAGTACTTAGGTTGGACTTCAGTCGGTCCAGTCTGGGGTATTTACTGCAAAATGTGAAATAACTTCGTTGTGACTTAGATGTTGTTGGTTTTCTTCTTAAAG
Seq C2 exon
ATAAAATTACTACTGGGAAAAGGAAACATGAAGATGATGAACCAGTATTTGAACAGATTGAAAACACGTCTGATCCAACTAGATGCCCTGTGAAACTGTTTGAGTGCTATCTGTCTAAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000017139:ENSGALT00000027684:24
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=0.390
Domain overlap (PFAM):
C1:
PF120123=DUF3504=PU(48.3=97.7)
A:
NA
C2:
PF120123=DUF3504=FE(23.0=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:
TCTCTCGAGTGGAAGAGGATT
R:
ACTCAAACAGTTTCACAGGGCA
Band lengths:
348-730
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]