GgaINT0112339 @ galGal4
Intron Retention
Gene
ENSGALG00000007905 | LAMB1
Description
laminin, beta 1 [Source:HGNC Symbol;Acc:HGNC:6486]
Coordinates
chr1:14685256-14686356:-
Coord C1 exon
chr1:14686212-14686356
Coord A exon
chr1:14685464-14686211
Coord C2 exon
chr1:14685256-14685463
Length
748 bp
Sequences
Splice sites
5' ss Seq
TGCGTAAAA
5' ss Score
-8.03
3' ss Seq
TCATTTCTGCCCATCTGTAGAAG
3' ss Score
7.39
Exon sequences
Seq C1 exon
GTTTCTGAAGCAAAGCAGAGAGCTGATGAAGCCAAACAGAATGCACAAGAAGTTCTGCTCAAAACCAACGCTACAAAAGAACAAGTGGACAGAAGCAATGAAGATCTGAGAAATCTTATTAAGCAGATCAGAGACTTCCTCATGC
Seq A exon
GTAAAAACCTTAAACTCACATTATCTCTTTTACTTCTGCATCTGTGAAAACTCTTTTTTGGCATCATTCTCCAGGGGGTAACATAATAGTCATCATCCTCCCCTGGCTCTTTTCAGCCAGATTTAGTGGGTATGATGAAATCTGGGAATGAGAAAACCAAGACAATAGGAAAGAAAGGCTGATCTGTAGTCCATTGTTTCGTTCCTTTCAGCTGGGTCCATTGTACTTCTCTAACTTGCCAAGTGTGTTCTTAAGTTCTGGCCAGAATGGCACAGTGCTGTTAAAGGGGAGGACAATCACAGTTAGAAACTGTGAGGTTATCTCCATGCAAGAAAACAGGTAAAGGTTAAATGAGGGCCCTTTTCGTTGTTGAGTGGCAGCATGGCAAACCCACTCCTTCTCTGAGAATACTGTTAGCACAAATACATTTATGTGCAGCTGTTGGCTTCCCTTCCTCTGGGCTCACAGCCCACCCCAGCCCCAGCATGGGGTAGTTAATCACTGAGATCAGCAAAAGGCTTCCAAGAGAATGATGCTAGCAGGGCTTTCGTGCCTGCTGGGCCTCTCCTTAGAGTGAAGTGTCACCCTAAGGAAACAGTTTTAATACCCTGATCTGCTGCAGTCTGGAGAAGAAAGTTTTTTCCATTATTTTGCTTCTTGAGGGAGCAGGTGGACAAGAATGTTGAATACTGAGAGCTGACAGCAGAAAGCTTTGACTCACCCTTGTGTCATTTCTGCCCATCTGTAG
Seq C2 exon
AAGACAGCGCTGACCTGGACAGCATTGAGGCAGTGGCTAATGAAGTGCTGAACATGGAGATGCCCAGCACCCCCGAGCAGCTGCAAGCCCTGACAGAAGACATCCGTGAACGCGTGGAAAGCCTTTCTGATGTCGAGGTCATTCTGCAGCAGAGTGCTGGAGACATTGCCAGAGCAGAAATGCTACTGGAGGAAGCTAAGAAAGCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000007905:ENSGALT00000012832:22
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.612 A=NA C2=0.343
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:
GTTTCTGAAGCAAAGCAGAGAGC
R:
AGCTTCCTCCAGTAGCATTTCTG
Band lengths:
342-1090
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]