GgaINT0011788 @ galGal3
Intron Retention
Gene
ENSGALG00000005321 | LAMA5
Description
NA
Coordinates
chr20:7828322-7829114:-
Coord C1 exon
chr20:7828970-7829114
Coord A exon
chr20:7828463-7828969
Coord C2 exon
chr20:7828322-7828462
Length
507 bp
Sequences
Splice sites
5' ss Seq
AAGGTCAGT
5' ss Score
8.68
3' ss Seq
GAGCTTTGCATGTCTTCCAGGAA
3' ss Score
7.69
Exon sequences
Seq C1 exon
GTGTAAGCCCAATGTAATTGGGCGACGGTGTGACCTCTGTGCCCCTGGCTACTACCACTATCCCAGCTGTCGGCGGTGTGACTGCCATCCTGATGGCACCGAAGTGAGCGTGTGTGACCCGGTGACGGGGCAGTGTCACTGCAAG
Seq A exon
GTCAGTCGTCCAGTGCCTTCATGTGATGCATTTGTGCTTGGCTTGAGTCTCCTTGCTCTGACTGTACAGCTGGTTTAGCCTTGGGGCTGTGGGTGTTTGATTCCTGCTGGGCTGGGGGGTTCAGAACACCCTGACTTGCTTCTCCCCATCTTTCCTGGCTGCCAGGGCTCACTCACCAGGCTGTTCCTGGGCAGTCAGGCAGCCTGAACCGAGCCCTGTTGTCAGAGAATGATGCAGGTAAAGCTGTCAGCCCACTGTGAGCAGAGTAACTCAAACTGCTGCTCAGCTGCCTCCTGCTGCTTTGCAGGGCTCACAAGTGCTTAGTTTAAGTGGATTCAATGTTTGCTGGGTGATGTGCTAGCAAACCTGTTTGGGCACTGCTTAATTGTCTTTCAGCATCATAGTGATGAACCTTGTTGGGCTTTGAACAGTCCTAGAGCCACCTCTGCCCTTTGCTTAGGCCCAGCAAGGAGCCTCTGATGCTATTGAGCTTTGCATGTCTTCCAG
Seq C2 exon
GAAAATGTGGAGGGTCCGAGGTGTGACCAGTGCCGCCTGGGGACGTTTTCTTTGGATGCCAGCAACCCCAAGGGGTGCACCAAGTGTTTCTGCTTTGGTGCCACCAATCGCTGCCGCAGTGCTGTGAAGTACCGAGCTGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000005321:ENSGALT00000008535:37
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=PD(51.0=51.0),PF0005319=Laminin_EGF=PU(44.9=44.9)
A:
NA
C2:
PF0005319=Laminin_EGF=PD(51.0=53.2)
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:
ATGTAATTGGGCGACGGTGTG
R:
CTCGGTACTTCACAGCACTGC
Band lengths:
270-777
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]