GgaINT0011784 @ galGal3
Intron Retention
Gene
ENSGALG00000005321 | LAMA5
Description
NA
Coordinates
chr20:7830211-7831114:-
Coord C1 exon
chr20:7830975-7831114
Coord A exon
chr20:7830327-7830974
Coord C2 exon
chr20:7830211-7830326
Length
648 bp
Sequences
Splice sites
5' ss Seq
CTGGTGAGC
5' ss Score
8.05
3' ss Seq
ACCCATCTTGTCCTCTGCAGGAT
3' ss Score
11.58
Exon sequences
Seq C1 exon
GTCAGACCAATGCTACTTTCTGTCCACATGGCTACGGGTGCCGGAGCCTGGTAGTTGCTGAGGACCAGATTGTCCTCGATGTTACTGACAATGATCTGATGGTGGTTGTTCGAGTCCCGGAGGGCAAGCAGCTGTGGCTG
Seq A exon
GTGAGCATTTCTCCAGGCAGCTCCTGCTGGACCAGGCTCCAGCCACATGGTTTCAGCAGTGCTGGACTTTGTCCTTGGGGATTTCTGTGGCTGTGTCACCATAAGAACATTTCCCATCATCACTCAGTTCCTGAACCAGCTTAGAAAGGTGCAGTCTTCAGCATTACTGTTGTAGAACTGAGGGTAGGATCCACAGAAGCAGGACCTGTATATGACGGTTATCCTTCGCTGTGTGGTTTTGACACCAAAGCAAGACCTTGGGCAGCAAACCTGCAGTGACCAAAATATGGGTAAATAGCTGAAAGGCAGGACAGGAACCCAGGTGTCTTCATGTCTGGGAGTTTAAGATGACAGCAGATGCCTGTTATGTATTGAAGCACAGCCTGTGCTCCCCTTTTAGGTATTCTGCCAGTGAGGGTTATGAGTCACACCTCATGTGGAGCATTAGAGCAGAGGGAGCCCTATGGATAGACCACAACAGAGAGGTGGCCCCCGCTCTTTCCAGTACTCAGGCACCTTTGTGTGTCATATTATGTCCTGTGAGGGATGAACTGATGAGAAATTAATTGGACTTTTGAGTGAGCTCCTTTTGGATTGCATCCATCAGCTCAGATAAAGAGCCAGGCTCACCCATCTTGTCCTCTGCAG
Seq C2 exon
GATTACATCCTCGTGGTGCCAGAGGACAGCTACAGCTCTCAGTACCTGCAGGAGGAGCCCCTGGACAAGTCCTACGACTTCATCAGCAGCTGTGGCATTAACAGCTTCTACATCAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000005321:ENSGALT00000008535:33
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:
NO
A:
NA
C2:
NO
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:
TCAGACCAATGCTACTTTCTGTCC
R:
TGATGTAGAAGCTGTTAATGCCACA
Band lengths:
254-902
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]