GgaINT0133391 @ galGal4
Intron Retention
Gene
ENSGALG00000002041 | AGRN
Description
agrin [Source:RefSeq peptide;Acc:NP_990858]
Coordinates
chr21:2722532-2723531:-
Coord C1 exon
chr21:2723397-2723531
Coord A exon
chr21:2722660-2723396
Coord C2 exon
chr21:2722532-2722659
Length
737 bp
Sequences
Splice sites
5' ss Seq
CGGGTGAGT
5' ss Score
9.89
3' ss Seq
GTCTGCCCTCCCTCCCGCAGCTA
3' ss Score
11.66
Exon sequences
Seq C1 exon
GGGAAGAGGAGGTGGAGGAAAGCCAGGTAACCCCAACTCCAGCCATTGAGAGGGCAACGTGCTACAACACCCCACTCGGGTGCTGCTCTGATGGCAAGACTGCAGCTGCTGATGCAGAAGGGAGCAACTGTCCGG
Seq A exon
GTGAGTCCGTCTGTTTTGGTGGCCAGGAGATGGACAGAGCCCTTGCAGGGCACAGAGCAGGGCAAGTGTTGGCAGTGAGCCCTGCCTTGGTCCCAGCCTGGACCTGGGCTCTCAGTGTGTCATCCCCTCTTTGCTCTGGACACCACATTCCCCTTTTAAACACACAAAAGGATATAAGCTATGGCCTCTCCATGTGGTTACCCACAGCAGGGATCTCCATAGCTCCCAAAGCTTTCCTGGAAGGGAACCGCACCTTGAGTTCCTATTGCAGTTTTACCAGGCTGACCCCAGCCTACTCACAGCATCTTTACTCAGCTCTCCCAGCACAGGTCTCCTCCTTGCCCGCAGCCACATGTGGCCCTGCTGTGCCCTTGTTGCATGCCCATGTCTGATCCGACCGTGTTGACTGTGTGCTGCTCTGGCTAACGTCTTTCTCTTGTTACTCAGCCGGTGCAGGGGGGCTGCTCTCCGGGCCGGAGCTCAGAGGAAACTGTATGGTAAAAGCTGCCATCTTCAGCCTGGTCTTTGCCATCTGCTCCAGCACCCTATGATACTAATCCTCCATGGCGCTCTCCCAGACCCATCCAGACTAACCCCAACACTGGCACTACCCGCACACTGCCATCATCCTTTCCCCCCCAGGGACTCGAACGCTCTTCACGGGTCAGCCAGATGCCTGCCCCCCGCCCCCGTGAGACAACTAAAGAAGTTTGTCTTGTCTGCCCTCCCTCCCGCAG
Seq C2 exon
CTACCAAAGTCTTCCAAGGAGTCCTCATCTTGGAGGAGGTGGAAGGCCAGGAGCTGTTCTACACACCTGAGATGGCTGACCCCAAGTCAGAGCTCTTCGGGGAGACAGCCAGGAGCATCGAGAGCGCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002041:ENSGALT00000003171:21
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.603 A=NA C2=0.256
Domain overlap (PFAM):
C1:
PF0139015=SEA=PU(0.9=2.2)
A:
NA
C2:
PF0139015=SEA=FE(37.5=100)
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:
GGGAAGAGGAGGTGGAGGAAA
R:
TGCGCTCTCGATGCTCCT
Band lengths:
263-1000
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]