GgaINT0112319 @ galGal3
Intron Retention
Gene
ENSGALG00000007905 | LAMB1
Description
NA
Coordinates
chr1:15891320-15891797:-
Coord C1 exon
chr1:15891677-15891797
Coord A exon
chr1:15891509-15891676
Coord C2 exon
chr1:15891320-15891508
Length
168 bp
Sequences
Splice sites
5' ss Seq
AAAGTGAGT
5' ss Score
8.4
3' ss Seq
GATTTTCACCTTTGTCACAGAGT
3' ss Score
6.49
Exon sequences
Seq C1 exon
GTCCATGGGCACTGCATGTGCAGGCATAATACCAAGGGCTTGAACTGTGAGCAGTGTTTGGATTTCTACCATGACTTACCTTGGCGACCTGCCGAAGGCCGCAATAGTAACGCATGCAAAA
Seq A exon
GTGAGTTTGGGTTAAATGCAAATCTGAAGCCTGGCGTTGCTTGCTTTTAGCATTATGCATTGTTGTGTGAGCGACTTGTGGAGTTTGTGATGACATGTAAAGTTCTGCGTGTTCTCCAGTTGACTCATCTCCTCTGAGGCTGACTCTCGATTTTCACCTTTGTCACAG
Seq C2 exon
AGTGTAATTGCAATGGTCACTCCACGCAGTGCCACTTCGACATGGCCGTGTACATGGCGACAGGGAACACCAGCGGAGGGGTGTGTGACGACTGCCAGCACAACACAGTGGGGCGCAACTGCGAGCAGTGCAAGCCCTTCTACTTCCAGCACCCAGAGAGAGACCTACGGGACCCTGACGTCTGCGAGC
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000007905:ENSGALT00000012832:7
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(61.3=92.7)
A:
NA
C2:
PF0005319=Laminin_EGF=WD(100=95.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAAGGGCTTGAACTGTGAGCA
R:
TCTCTCTCTGGGTGCTGGAAG
Band lengths:
252-420
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]