GgaINT0112320 @ galGal4
Intron Retention
Gene
ENSGALG00000007905 | LAMB1
Description
laminin, beta 1 [Source:HGNC Symbol;Acc:HGNC:6486]
Coordinates
chr1:14712542-14713289:-
Coord C1 exon
chr1:14713101-14713289
Coord A exon
chr1:14712722-14713100
Coord C2 exon
chr1:14712542-14712721
Length
379 bp
Sequences
Splice sites
5' ss Seq
AGCGTAAGG
5' ss Score
5.87
3' ss Seq
GTGCAATGCTTCCTTCTTAGCTT
3' ss Score
5.18
Exon sequences
Seq C1 exon
AGTGTAATTGCAATGGTCACTCCACGCAGTGCCACTTCGACATGGCCGTGTACATGGCGACAGGGAACACCAGCGGAGGGGTGTGTGACGACTGCCAGCACAACACAGTGGGGCGCAACTGCGAGCAGTGCAAGCCCTTCTACTTCCAGCACCCAGAGAGAGACCTACGGGACCCTGACGTCTGCGAGC
Seq A exon
GTAAGGGCAGCCCTGTGCCTGGTGGGACGGATGTTGGGGCTGGGCCATGGTCCTCGGGGCTTGCTGTGGGAGATTTGGGATTTATCATAGCTGCTGCTCTCTTCCCCACTCCTTCCTTCATCCCAAAGATCCTGGAGGGGAGCTTGGAGGTTAGCTTGGGGGAGTTGAGTGAGCCTAGCTGCGTTTTGTTTCTTTTCTGAAAGAATCTGCAAATGTATTTGGTGGCTTTATGCTCAACTTGTCATCTCTACTCCTTGTGGTAACTGTACTCCTTGCGGTAACTCAGCTGTAACAGCAGCTGAGTTTAAATTACTCAGTGTGAGACTTTGCCTTTCCTGTTGTAGCAGTCAACAAAATGTGTGCAATGCTTCCTTCTTAG
Seq C2 exon
CTTGTAATTGTGACCCAGCTGGCTCCCAAAATGGTGGCGTATGCGATCGCTACACTGACTTCTCTACGGGCCTCATTGCGGGCCAGTGCCGCTGTAAATTATTTGTCGAGGGGGAACGTTGTGATCTCTGCAAAGAAGGTTTCTATGGACTGAGTGCCGATGACCCATCGGGCTGTCAAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000007905:ENSGALT00000012832:3
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=WD(100=95.3)
A:
NA
C2:
PF0005319=Laminin_EGF=WD(100=95.1)
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:
CAGTGCCACTTCGACATGGC
R:
ATTGACAGCCCGATGGGTCAT
Band lengths:
343-722
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]