GgaINT0112665 @ galGal3
Intron Retention
Gene
ENSGALG00000012751 | STAB2
Description
NA
Coordinates
chr1:56827995-56828618:-
Coord C1 exon
chr1:56828477-56828618
Coord A exon
chr1:56828129-56828476
Coord C2 exon
chr1:56827995-56828128
Length
348 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGG
5' ss Score
9.16
3' ss Seq
GTCCCTCTCTCTCTTTGCAGACA
3' ss Score
13.78
Exon sequences
Seq C1 exon
GACAAACGCAAGTGTGACTGTAAAAACAACTACATCGGTGATGGGCTGAACTGCTCAGTGATGCAGCTTCCTCTTGACCGCTGCTTGCAGGACAACGGGCAGTGCCACCCTGATGCAGACTGCACCGACCTCCACTTCCAAG
Seq A exon
GTGAGGATGGCACACCATGGGACAGGAAGGTCCTTGTCCCTGTGCCACTGCACTGATGTCAGTGGGTCTGGCCTGGATCCTTGTGTCTGTAAGATCCCCAGTCCTCTACCCATGTCCACTGGAAACAGTGAGATGTAAGTACAGCTCAACTTAGAACATTAAATACTTTGCCATACTGGGTTTATGAAGCAACAGATGAAGGCATTCCAGGTAGAATATTACCCATCATTCCCTGTCTGTCCTAACTATATTTCATAAAAGTCACAGATATTCCCTATCGCACGGTTGATTTTTAATCCAGAAATGGAAGCCCCATCGGGAAGAGCTGGTCCCTCTCTCTCTTTGCAG
Seq C2 exon
ACACAACAGTTGGAGTTTTCCATTTACGGTCCCCAAAGGGGCAGTACAAAATGACTTATGAGAAGGCAAAGGAGGCCTGTGCCAATGAGTCAGCCACCGTCGCCACATACAACCAGCTGCTGTATGCACAGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000012751:ENSGALT00000020806:60
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(44.7=35.4)
A:
NA
C2:
PF0019312=Xlink=PU(43.6=91.1)
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:
CGCAAGTGTGACTGTAAAAACA
R:
GCATACAGCAGCTGGTTGTA
Band lengths:
263-611
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]