GgaINT0133390 @ galGal3
Intron Retention
Gene
ENSGALG00000002041 | AGRN
Description
NA
Coordinates
chr21:2707527-2708146:-
Coord C1 exon
chr21:2707772-2708146
Coord A exon
chr21:2707662-2707771
Coord C2 exon
chr21:2707527-2707661
Length
110 bp
Sequences
Splice sites
5' ss Seq
CTGGTGAGC
5' ss Score
8.05
3' ss Seq
ACCTTAATACTTCCTTGCAGGGG
3' ss Score
9.57
Exon sequences
Seq C1 exon
CTCACACGAGCCATACGATGCCACCCACCCCTCTGCCCACCTTGCCCTTGGACAAGCTCATCGTACCCCCACCACTGCAGCTGACCACCCAGGCTCCAGAGCCCACTGAGCTGGCCACCACCTCCCTGCTGATGGAAGCCAGCCCCACTACAAGAAGTCACCCTACAACAAGGCGTGTCACAACGACCCGACCTGTCACCACACCATGGATGACCCATGGAGTGCTGAAGACCACCGTCCGCCCACTCTCCACCTCTCCAGTGGTCCTGGCCACCACTCAGCCTCCCTACGCTGAATCGGGCAGTGCAGAAGGCAGTGGGGACCAGGAGATGAGCATCAGTGGGGACCAGGAATCCAGTGGGGCAGGCTCTGCTG
Seq A exon
GTGAGCATCACTTCTGGGCCTTCGGAGGTCACCTGGAGTCTCAATGAAAGAGATGAGGCCGTGTCCCAGCCTCATGGTCTAATAGGTCCTACCTTAATACTTCCTTGCAG
Seq C2 exon
GGGAAGAGGAGGTGGAGGAAAGCCAGGTAACCCCAACTCCAGCCATTGAGAGGGCAACGTGCTACAACACCCCACTCGGGTGCTGCTCTGATGGCAAGACTGCAGCTGCTGATGCAGAAGGGAGCAACTGTCCGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002041:ENSGALT00000040179:17
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.992 A=NA C2=0.609
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0139015=SEA=PU(0.9=2.2)
Main Inclusion Isoform:
NA
Other Inclusion 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:
CCTACAACAAGGCGTGTCACA
R:
GTTGGGGTTACCTGGCTTTCC
Band lengths:
251-361
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]