GgaINT0081928 @ galGal4
Intron Retention
Gene
ENSGALG00000015001 | LAMA4
Description
laminin, alpha 4 [Source:HGNC Symbol;Acc:HGNC:6484]
Coordinates
chr3:65185429-65186747:+
Coord C1 exon
chr3:65185429-65185545
Coord A exon
chr3:65185546-65186561
Coord C2 exon
chr3:65186562-65186747
Length
1016 bp
Sequences
Splice sites
5' ss Seq
TAGGTTGTA
5' ss Score
-4.73
3' ss Seq
ATCCCCTATTTATTATGTAGTGG
3' ss Score
4.59
Exon sequences
Seq C1 exon
GTAATGATTTAACCATTGCAGACACCAGCCGTCATGTTAATGGCACTGCGGCACGAATGCATGCTGTGCAAAGCAAACTGATGAGAGCCATCACAAAAATGCAATCAGCAGAACTAG
Seq A exon
GTTGTAAGAAATTTCATTTTTATGATTCTTTGCCTTCAAATGCTTTACAGCACATTATGTATATGGCCTATGAAGTTGATATTAAGATTTCAGTTCCAGGAAGGCTCAAACAAATTTGATGGAAACGACAAGACATAATCAATACCAATCCATCTTTGATGTATTCATGATAAAATTATACATTTTTTCCATCAGAAATTACTAACATTTGTTTTGATCCTCCTTCCTACAATTGTCCTCTCCCATTTAACTCTTGATTTTTTCAGGGCTTGGATCTGAATCACAAATCTTTGGATTTACTCTATTGATTAAAAAATAGAAAATGATTAAAATCTAATTCTCATATAATCACATACAGAGTATTTGGGAGATTAATTACTGGTAGTCTTGATTGACAAAATCTCACTTTAGTTTCTCAGGAAACAGATATCATAGAGCATCCAGCTCATGCCTAAAGATGTTCAAAGTTGACATATTCAAGAATTCTTCATTAATTCCTATCAGAAATATCTTGCTTTTTAGTACTAAGATATCATATGCGAAATTCCATGATTTTAGAAATACAGTCCTTGGTAACTCCAAAGGAAAAAAAAAAAGATACTGGGTATGGAATTACAAGAGCATTTTAGTGCCTTGGATTTCTCTCCGCTGAAAATAACTTTCATGAAAAATGTTCAGTCTTTACATAAATTTTCTTTTAAAACGCAAAGAAAAACAGAATATCCCTGGCTATGCAGCAACCTTTAAAATCCAAAGGTGTTGAAAAACTTTATCAATCCAGAACTATGAGGAAATGAGGATGTGTTACATTTAAAGAATTAACATAATGGTAGACCACCCACTAGGACTTTTGAGTATTCCCAGTGGAAACAAAGAGAAGACCAAATAAGCAAGGTTGGATCTCCATTCTGCAGAAGATAAAATCCTCTTAATCTCATCACTTTTGAAGTACAGGCAGCAGGTCATTTGAAACTCTATCAGTGTTCATTTCCTCTCATCCCCTATTTATTATGTAG
Seq C2 exon
TGGAGGCCAGAGAGCGCTTGGAGCAAGCTAAACAGAAGACTGCAGAGGCCGTTAGCACTACTGTGACAGTAACACAAGCTACAACCCCCATGGATGAGAATGTGAGGTTGTGGTCTCAGAACCTGCAAGACTTCCAGCACGACTCAGCTGCCTACGACAGCGCTGTGCACTCAGCTGGGGATGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000015001:ENSGALT00000024193:16
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.225 A=NA C2=0.429
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF060097=Laminin_II=PU(40.8=84.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TAATGATTTAACCATTGCAGACACCA
R:
CTGCATCCCCAGCTGAGTG
Band lengths:
302-1318
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]