GgaINT0112338 @ galGal4
Intron Retention
Gene
ENSGALG00000007905 | LAMB1
Description
laminin, beta 1 [Source:HGNC Symbol;Acc:HGNC:6486]
Coordinates
chr1:14686212-14686943:-
Coord C1 exon
chr1:14686740-14686943
Coord A exon
chr1:14686357-14686739
Coord C2 exon
chr1:14686212-14686356
Length
383 bp
Sequences
Splice sites
5' ss Seq
ATGGTAATC
5' ss Score
4.14
3' ss Seq
CTCTACTTTCTTCTCTTCAGGTT
3' ss Score
11.18
Exon sequences
Seq C1 exon
ATGTGTGGCACTCCAGTGGGAGCCTCTTGTGCTGAGTCGGAGTGTGGAGGACTGCACTGCCGGACTGCTGCAGGGCAGAGAAAGTGTGGAGGACCTGGCTGTGATGGGCTGGTCACTGTCGCTCACAACGCGTGGCAGAAGGCCATGGACTTCGACAGAGACATCCTCAGTGCGCTGGCAGAAGTTGAGCAACTCTCCAGAATG
Seq A exon
GTAATCCATAAATCCATTGTTGCAATAAAAAAGAAAAAAGAAATCGTAGTGGTAACCCAAGTTTAGACACTAACTGGCAAAGTATGTGCCTGGCTTACTTCACAATCCTCCTTTCTAGTTGCATAACATCAAACTTGTGAAGATACTCAGACTTCAGCTTGCTCAAGTCAAGTTTCATGCGTTACTCCAAACATGAGCAGGAGTTGTTTAAACTAGCATTGGTGGTGTGGATCACAGCCAGCTTTTAAAAGTGTTCTGTGAGTTTTATGAGAAGAGGCATTTCTCATTACTGTTACCTCTGACTCCAACTGAATTTTTGTTGTAAATCAGGCCTGAAAGCATACGCAAATATGCAGTCAAGCCCTCTACTTTCTTCTCTTCAG
Seq C2 exon
GTTTCTGAAGCAAAGCAGAGAGCTGATGAAGCCAAACAGAATGCACAAGAAGTTCTGCTCAAAACCAACGCTACAAAAGAACAAGTGGACAGAAGCAATGAAGATCTGAGAAATCTTATTAAGCAGATCAGAGACTTCCTCATGC
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000007905:ENSGALT00000012832:21
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=0.612
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:
ATGTGTGGCACTCCAGTGGG
R:
GCATGAGGAAGTCTCTGATCTGC
Band lengths:
349-732
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]