GgaINT0124726 @ galGal4
Intron Retention
Gene
ENSGALG00000008819 | LRSAM1
Description
leucine rich repeat and sterile alpha motif containing 1 [Source:HGNC Symbol;Acc:HGNC:25135]
Coordinates
chr17:1532071-1532739:-
Coord C1 exon
chr17:1532608-1532739
Coord A exon
chr17:1532153-1532607
Coord C2 exon
chr17:1532071-1532152
Length
455 bp
Sequences
Splice sites
5' ss Seq
AAGGTATGA
5' ss Score
9.11
3' ss Seq
GCCCTCCTTTTGCACTGCAGATG
3' ss Score
10.07
Exon sequences
Seq C1 exon
GAGGAGGGCTTGGAGAAGCAGCTGGTGAACCTTTTAATCGAGCTGTCAGCTGAACAGTATGTGCCTGTCTTTGCACACCATCGAATTTCCTTGGAAATGCTCAGCACCATGACTGCCAGTGACCTGGAAAAG
Seq A exon
GTATGAGGCAGCAGATAAGCAGTACAGGGCAATGCTGCACTGTGTCTGAGCTCGTGGTTGTGCCTGCTAAGCCGTGCTCGTGGTTGTGCCCACAGCAGATCTTGCAGGACGGAGTGTTGGTGCTCCTGGTGTGCCACATCTGTGCAGGGGGAGGTGCTGATGCTACTCTGTGCCCTGTCCAAGCAGTTGACAGCTTTGCCAGAGCACATGCAGGGTGAGCTGTAACTTAGCTCTGCCTTTCAGTGTCCCTCAGATGCGCTTTGTAGCTCAACAGAGGGCACGTGGGGAATTCCTCCATTCCAGCTTTGATGCCTGATGGAGATTCTTCCCTTGACATGAACAGGTCTTGCCAGCATGGCCAAAGAGTTTGCTTTCTTCTCTTGGAGATGTCTTCTTTCTCAGCCCCCTCTTTACTTTCTCATCTGGGTGCTGACAGCCCTCCTTTTGCACTGCAG
Seq C2 exon
ATGGGCATTGCAGAGACTGGCCTGCAGCGTGCCATCCTCAGACGGGCACAGGAGATCCTGGCTGTGGCGAAGATGATCCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000008819:ENSGALT00000014334:22
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:
PF0053625=SAM_1=PU(66.1=93.2)
A:
NA
C2:
PF0053625=SAM_1=PD(30.6=67.9)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping 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:
CTTGGAGAAGCAGCTGGTGAA
R:
CTGGGATCATCTTCGCCACAG
Band lengths:
206-661
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]