GgaINT0011786 @ galGal3
Intron Retention
Gene
ENSGALG00000005321 | LAMA5
Description
NA
Coordinates
chr20:7829327-7829956:-
Coord C1 exon
chr20:7829745-7829956
Coord A exon
chr20:7829532-7829744
Coord C2 exon
chr20:7829327-7829531
Length
213 bp
Sequences
Splice sites
5' ss Seq
GGCGTAAGT
5' ss Score
9.39
3' ss Seq
CTCCTTTTTGTCTCTTGCAGCCT
3' ss Score
12.15
Exon sequences
Seq C1 exon
TCCCAGCACATCGTCGAGGTTTTGCCGTGACTCCGCCATCTCGCTGTCCCTCTTCTACAACAATGGGGCACAGCCCTGCCAGTGCCATGAGGCGGGGGCACGGGGCAGCCAGTGCGAGCCCTTTGGTGGGCAGTGTCCCTGCAAGTCCAATGTCATCGGGCGAGAGTGCTCCCGCTGCGCCACCGGCTACTGGGGCTTCCCCAACTGCAGGC
Seq A exon
GTAAGTTGTCCTGTCTCCTGCCCTGCTTTCTGCAGCACTGACTGCTTGGCCTCTTTTGGGGCAAAGACAGAATTGGAAACGCTTGCATTTTCCAGCCCTGAAACGGCTTCAGGAAGGCAGCCCAGCCCCCTGCAGAGCCTCCGTTGCCCTGTGCCTTCCTTGGGTTGCGTGGCTCTTGCTTTTCCAAACACACCTCCTTTTTGTCTCTTGCAG
Seq C2 exon
CCTGTGACTGTGGGACACGACTCTGCGACGAGGTGACAGGGCAGTGCATCTGCCCTCCTCACACCCTGAAGCCAGAATGTGTTGTCTGTGAGCCCCAGACCTTCGGTTGCCATCCCCTCATCGGCTGTGAGGACTGCAATTGCTCGCAGCCTGGAGTGCAGGAGCTGACAGAGCTTGGCTGTGATGTGGACAGCGGGCAGTGCAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000005321:ENSGALT00000008535:35
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:
PF0005319=Laminin_EGF=PU(91.8=62.5)
A:
NA
C2:
PF0005319=Laminin_EGF=PD(6.1=4.3),PF0005319=Laminin_EGF=PU(46.9=33.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCTACAACAATGGGGCACAGC
R:
CGAGCAATTGCAGTCCTCACA
Band lengths:
305-518
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]