GgaINT0133400 @ galGal3
Intron Retention
Gene
ENSGALG00000002041 | AGRN
Description
NA
Coordinates
chr21:2700915-2701503:-
Coord C1 exon
chr21:2701407-2701503
Coord A exon
chr21:2701080-2701406
Coord C2 exon
chr21:2700915-2701079
Length
327 bp
Sequences
Splice sites
5' ss Seq
GCAGTAAGT
5' ss Score
9.07
3' ss Seq
TGTCATCCTTCTCTCCTCAGGGA
3' ss Score
12.61
Exon sequences
Seq C1 exon
TGACGGAGCAGGACCACACCATGCCCTTCCTCCCAGAGTTCAATGGCTTTTCCTACCTGGAGCTGAACGGGCTGCAGACCTTTGTTCCTGACCTGCA
Seq A exon
GTAAGTGCTCAGGAGTGTGTTGCCAATAGCAAAACCTTGGAGATTTTATCTAGAGGGACTGGAATTACTGGAATTGCTGTTGCCAGCAATGATGTGCCAAGGTGCCTGGTGCTGCAGTGGGCTGGGTGAGCACTGCAGGCTGGCATCCTGAAGGTGGCATATGTCTCTCCTGCATGGCAGTTCTGCCTGTAGGGTCAATGGGTGGCATCCCTAAGAGATCTGTGGGACCAGGCAGGCAGATGTCTCCAGGGCCCTTTGCACAGGGGTGGACGAAGAGAGTCTGTGGGCAGCTGGTTTGGAGGGTATCTGTCATCCTTCTCTCCTCAG
Seq C2 exon
GGACAAAATGTCCATGGAAGTGGTGTTCCTGGCCAAGAGTCCCAGTGGCATGATCTTCTACAATGGGCAGAAGACAGATGGCAAAGGAGACTTTGTGTCTCTGGCTTTGCACGACGGCTACCTGGAGTATCGATATGACCTGGGCAAAGGGGCAGCTGTGCTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002041:ENSGALT00000040179:27
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:
NO
A:
NA
C2:
PF0005418=Laminin_G_1=PU(33.8=82.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGACGGAGCAGGACCACAC
R:
CTGAGCACAGCTGCCCCTT
Band lengths:
262-589
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]