GgaINT0011779 @ galGal3
Intron Retention
Gene
ENSGALG00000005321 | LAMA5
Description
NA
Coordinates
chr20:7833085-7833907:-
Coord C1 exon
chr20:7833747-7833907
Coord A exon
chr20:7833194-7833746
Coord C2 exon
chr20:7833085-7833193
Length
553 bp
Sequences
Splice sites
5' ss Seq
CAGGTATGG
5' ss Score
9.99
3' ss Seq
AATCTATGTTTGTCTCACAGTTT
3' ss Score
8.4
Exon sequences
Seq C1 exon
GTGGAAGTCCAGCTGTCGCTGCCTATTGCCCAACCTGGAAAATATGTGTTGGTGGTGGAGTACGCCAACCCCAATGCTTTGCATCCGGTGGCCGTTGCCATCAGCTCACCGCACTTAGCCATGCAGCAGGGCACGTTCACCTTCTACCCGTGTGTCTACAG
Seq A exon
GTATGGTGAGCTCTGAGAGAGTAAGTTCAGTCCCCTGTGACCTGGCTAGGGCAGACTTCCTTGCTTGAGCTTTTCCTACCTTATGGCATAAACAAAGCAGTGCTGCAGTGTTGTATATCTAAGCTGTCCAAACTCATTCTAACTGGATATGGATTTTACAGACTGGCTGTGCCTGGGAACTGCATGGCATCCCTGGCAGGTTATCATGCCAACGTAGTTTTGTAATACCTCTGCCAAGTGGCCTATTGCTCCCATTTGCGACTGGGTACATTGGTAGGGGCCCTGGTTTGGGGAATGACATACAAGCAGGTTTATTGGAGCCACTGGTGAAGGTCAAACTGTGCCCCTAACTATAGAAGTGTCTGACTTCAGGCTGCAAACTTTGCAATGGGAAACAAATGTCTGAGGTGTCCTTGGGAAACCTGCCAGAAAAGGCATCAAAAGATTTACAGGGACTTTGTCTAAATGCCTCCAGGACATATAGCTGGCAGAGACAAGAAATGTGTCACGACCCTGCTCGAGGCTGGCCTCAAAATCTATGTTTGTCTCACAG
Seq C2 exon
TTTCCTTTGTCGAGGGGTTGCTGTGGATTCCCAGAGCAGATTGGCAACTTTTGAACTTACCTCGGAGGCCACGATTCGGTTCATCGCTGACCTGGCTGACTTCTTCCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000005321:ENSGALT00000008535:28
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
Cow
(bosTau6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGGAAGTCCAGCTGTCGC
R:
GAAGAAGTCAGCCAGGTCAGC
Band lengths:
266-819
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]