GgaINT0133402 @ galGal3
Intron Retention
Gene
ENSGALG00000002041 | AGRN
Description
NA
Coordinates
chr21:2699658-2700677:-
Coord C1 exon
chr21:2700563-2700677
Coord A exon
chr21:2699775-2700562
Coord C2 exon
chr21:2699658-2699774
Length
788 bp
Sequences
Splice sites
5' ss Seq
CCGGTACGT
5' ss Score
10.49
3' ss Seq
CCATCTCCCCTCCTTGCCAGGTG
3' ss Score
10.1
Exon sequences
Seq C1 exon
CAGGAGCAAAGAGCCAGTTCCCCTCAACACCTGGATAAGCGTTTTGTTGGAGAGGAGTGGGCGCAAAGGGGTAATGAGGATCAACAATGGCGAGAGGGTGATGGGAGAGTCACCG
Seq A exon
GTACGTTGACAGGCCAAAACAAGCTGCCCAGAGCTCTCTGGGCTTCCAACCCTGCTCCCCTCCCTGTGTGAAACCAGCTGAGATACCAGACCCATGGGCTTTGATTCCCGGAGGTGCATGGAGGGTGGAGGAGGAGTGGGCGAGACCTGGGAGCTGAGGATGCTGGTGGGACAGCCGCTGCACACTCCTTGCTCTTGCAACCCTGCATGTTGTGATGTTACCCACTGATCTTCCATTTCTCTCTCTCTTTCTCTCTCTCTCCCTTTGATTTGCATTTGTATTTTTCCCTCCCCTGCTGTCTGGATCCCAGAAATCCCGTAAGGTACAGATAAGTATGACCCACTGCACCTCCATCTCATCTGCCATTGGCACGTTGTTCTTCTGTTTTCCATCCAGATCTCAGTGTCTCACCTGCTTCCCTTCCCATCTGACCAAGCAGCTTTAGGATCTCTGTAGATTAGAGACACTCGTTTCCTCTTCATTAATTTCCAGCCAGTTGTTGCATTTTTGTTTCGGAAGCATTACAATTAATCTGGTCATGTTTCTCGTGTTAACTCCACAAAGCATTAGCTAGTGACTCATATAACTGCATCCTGGTCCTGCTGCCATGGCCCAGGTTCCCAAATCATTTGAGTTAGAGGAGATCCTCCTTTGTATCATTGAAATGGCCGATAGAGTCATGGAGTGGCTTGGGTTGGAAGGGCAAGGATACCACTCGCTAGATCAGGTTTGCTGTAGAGGATCTGCATCATCTGAATGAATCTCCTTCCATCTCCCCTCCTTGCCAG
Seq C2 exon
GTGCCTCACGCCTTCCTCAACCTGAAGGAGCCATTCTACGTGGGGGGAGCCCCCGATTTCAGCAAGCTGGCTCGAGCTGCAGCCATCTCCACCAGCTTCTATGGAGCTGTGCAGAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002041:ENSGALT00000040179:29
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.176 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0005418=Laminin_G_1=FE(27.2=100)
A:
NA
C2:
PF0005418=Laminin_G_1=FE(27.9=100)
Main Inclusion Isoform:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCAAAGAGCCAGTTCCCCTC
R:
GCACAGCTCCATAGAAGCTGG
Band lengths:
222-1010
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]