GgaINT0000219 @ galGal3
Intron Retention
Gene
ENSGALG00000013254 | LOXL3
Description
NA
Coordinates
chr4_random:107951-108949:+
Coord C1 exon
chr4_random:107951-108263
Coord A exon
chr4_random:108264-108785
Coord C2 exon
chr4_random:108786-108949
Length
522 bp
Sequences
Splice sites
5' ss Seq
TTGGTAAGA
5' ss Score
8.85
3' ss Seq
CCATCCCTGGTGTGCGGCAGGGC
3' ss Score
5.18
Exon sequences
Seq C1 exon
GCCATGGGACGCTGCGGCACGAGGGCATGGCAGGAGCTGCTGGTGCTGCTGGGCGGGCTGTGGATGTGGGGGAGTGGCGCGCAGCCCACCCCTCCCAGCCCCACGAGCAGCTCTGTGCCCCCTCTGAAGTTCCGTCTGGCTGGGTATCCCCGCAAGCACAACGAGGGCCGGATTGAGGTCTTCTACAATGAGGAGTGGGGCACCATCTGCGACGATGACTTCACGCTGTCCAACGCGCAGGTGCTGTGCCGGCAGCTTGGCTTCGTGGGGGCCACCGGCTGGGCCCACAGCGCCAAGTATGGCAAAGGAGTTG
Seq A exon
GTAAGATGGGGGGGTGCAGCCCCAGGCTGTGGGTCTATGCATGCAGCGCTGGAGCCAAGCAGGGTTCTTTCTGTACAGTGCCTGGCAGCATGAATGTGCCTGCGTGTGCGCCTGCATGCATGTGTGTGTGCAGAGCGGAACAGGAACCTCTACGTGTATGTGTGTGTATGTGTGTATCCATCCCATGCTCATGGAGGCTGTGTGTGTACCGCATTGTGGGGCTCTCTGGGTGCTGTGGGTGGCTGCAGGGCTGTGCTTGTGAGGGTGTGTGCAGTGGTGCAGCACGCTGAGTGCAGATGAGGTTCCGTACAGTCCCCTGGCTGCACGTGAGTTCTGTGTCTGCTGGAAACTCCCTCCTGCTGCCTCCACCCTCAGGCCTTCTTTTTTTTGTGTGTGCCTGGCCCCAGCTTTGTGCTGCCCCAGTCCATGTCCCCACACTGCCATGTGTGGCGGTATCTCCTCTGCTCTGGGGGCTGCTGCGTGGTCTCTGTCCCCCCTCACCCCATCCCTGGTGTGCGGCAG
Seq C2 exon
GGCGGATCTGGTTGGACAACGTGAACTGTGCGGGGAATGAGAAGAGCATCAGGGACTGCAAACACCGGGGCTGGGGGAACAGCGACTGCAGCCACGAGGAGGATGCGGGCGTCATCTGCAAGGATGAGCGCATCCCAGGCTTCAAAGACTCCAACGTCATCGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000013254:ENSGALT00000021647:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.096 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0053013=SRCR=PU(57.3=52.9)
A:
NA
C2:
PF0053013=SRCR=PD(41.7=72.7)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTCTGAAGTTCCGTCTGGCTG
R:
TGGAGTCTTTGAAGCCTGGGA
Band lengths:
345-867
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]