GgaINT0124727 @ galGal3
Intron Retention
Gene
ENSGALG00000008819 | LRSAM1
Description
NA
Coordinates
chr17:1928642-1929142:-
Coord C1 exon
chr17:1929061-1929142
Coord A exon
chr17:1928791-1929060
Coord C2 exon
chr17:1928642-1928790
Length
270 bp
Sequences
Splice sites
5' ss Seq
CAGGTACCA
5' ss Score
7.88
3' ss Seq
ACCTCTGCTTGTGTTTGTAGAGC
3' ss Score
9.06
Exon sequences
Seq C1 exon
ATGGGCATTGCAGAGACTGGCCTGCAGCGTGCCATCCTCAGACGGGCACAGGAGATCCTGGCTGTGGCGAAGATGATCCCAG
Seq A exon
GTACCAGCAGTTCTTTTCTGCCTGCTCCTTGACATGTGGTGTGGCAGCAGCAGGCATCTGAGCCTTGAATGGGGAGATCTGCAGGGCCAGATGCCTGCCTATGGGGAGTAGAGCTGTTTGAGGTTTGTGTGCCTGTGGGAGAGGCAAGGAGTGCTGCACTGTGTCACCGTTGACTCTCAGAGCACTGAGCTCCCATGGGCACACAGCTGCTCCTGAGTGGGTGGGAGATGGAAGCTCCCCTCGAGCTCAGACCTCTGCTTGTGTTTGTAG
Seq C2 exon
AGCTGCTGAGGACGGAGGACGCTGAGATCCCTGCAGCTGCACAACCCAGTGCCCCTGAGGAGGAGGCCCCGAGTTCTGTGGTCCCCACCGCTCCCCTGCTGCAGTGGGATGAGAAGAAGTCAGAGTGCGTTGTCTGCATGGAGCAGGAG
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=0.340
Domain overlap (PFAM):
C1:
PF0053625=SAM_1=PD(30.6=67.9)
A:
NA
C2:
PF139201=zf-C3HC4_3=PU(23.9=22.0)
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:
ATGGGCATTGCAGAGACTGG
R:
CATGCAGACAACGCACTCTGA
Band lengths:
222-492
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]