GgaINT0011778 @ galGal4
Intron Retention
Gene
ENSGALG00000005321 | LAMA5
Description
laminin, alpha 5 [Source:HGNC Symbol;Acc:HGNC:6485]
Coordinates
chr20:8201533-8202537:-
Coord C1 exon
chr20:8202384-8202537
Coord A exon
chr20:8201694-8202383
Coord C2 exon
chr20:8201533-8201693
Length
690 bp
Sequences
Splice sites
5' ss Seq
GACGTGAGT
5' ss Score
9.22
3' ss Seq
GCTGTGTCTCTGTTCTCCAGGTG
3' ss Score
11.17
Exon sequences
Seq C1 exon
CTGCCTCTTGTATAAGTACCTGTCTGTGGATGGCTTCCCTGCTGTGGCAGGGGTGGGTGCAGTGTGCAGGCTGGACAACCGGTTACCCAGAGGCTGCCCCACGGAGCAGCTCACCCCTGCCCATCCTCGGATGGCGATGTGCAGCGGCAACGAC
Seq A exon
GTGAGTAGCACTTCTGCTTCCTCCCTTGCATGGTGGCAGTCATCTCTGCACCGTCTGGTGCTCTGCACACACCTGGGCAGGTTATCAGAAGGATGTTGCACCCAAGTGCACCTCAGTTGCTCCATTACTGTTGGAGCTGTGTGCTTGCATGCCCTGTTGCTCAAGACCAAAAGCAGTGTCTTGCATGCAAGCAGCTTACAAAGACGTGTGGTACATGCTAAGAGCCATCACATCTTCCTCTCAGTCCCCTGCAGCCCTGGCTTGTAGCCCTAGAGTGTTCTCTGAGAGCCTAGAGCATGCAGGTAACAGAAGTGAAGATAACTCTGCAGACAGCTGAACACAGGGATACAAACCTCAAGGTGTAAAGCTGGAACGAATCACCCCAAGCAAACAAGTAGCACGTGCTTCTGAGTATGGCTTGTTCTGCCCTGTTTCATTCAGCAGCAACTGCTGCACGGGGACAAGGGGAGATTGATTTGAGGACCAGAGCTGTGAACACCTTTTAATTCATGATCACTTGAAATGCCACAAAGGAATGTCATTGTGTATCTTTTCCCATGAGGGGTGCAAACAGCAGTGGGGTGCAAACTCCAGTGTTTGCTGCAGAGGATTGGTAACACAGGCATCACATGTACTCGCTATGGGGGGTGAGACAGGAGCTCCCCCTCCAGCTGTGTCTCTGTTCTCCAG
Seq C2 exon
GTGGAAGTCCAGCTGTCGCTGCCTATTGCCCAACCTGGAAAATATGTGTTGGTGGTGGAGTACGCCAACCCCAATGCTTTGCATCCGGTGGCCGTTGCCATCAGCTCACCGCACTTAGCCATGCAGCAGGGCACGTTCACCTTCTACCCGTGTGTCTACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000005321:ENSGALT00000008535:22
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.038 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
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGCCTCTTGTATAAGTACCTGTCTG
R:
AGACACACGGGTAGAAGGTGA
Band lengths:
310-1000
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]