GgaINT0081945 @ galGal4
Intron Retention
Gene
ENSGALG00000015001 | LAMA4
Description
laminin, alpha 4 [Source:HGNC Symbol;Acc:HGNC:6484]
Coordinates
chr3:65212114-65213023:+
Coord C1 exon
chr3:65212114-65212269
Coord A exon
chr3:65212270-65212863
Coord C2 exon
chr3:65212864-65213023
Length
594 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAAT
5' ss Score
8.76
3' ss Seq
CATGCTCTTTCTTCCCCCAGATT
3' ss Score
12.23
Exon sequences
Seq C1 exon
GTGATATTTATTAGAGGCAAAAATATTGGTCGCTTGATAATTGATGGTCTCCGAGTACTAGAAGAAACTTTCAATGTTAATGCTAATACCTGGCAAGTCACTGAACCACTGTATATCGGGGGTGTAGCTCCAGGAAAAGCTGTGAAAAATATCCAG
Seq A exon
GTAAATCAGACAGCTATTATATCACCCATATGTTTATGTACAGCTAGAGCAAAAGCTGCCTATAGGGATGAGTCCAAAGAAAAGTATATCCTCAGCATGTTGAGGAGCTCACAGCTCAGTTCACGTGATAGCAAAGCTCCCACAGAGCTGAACTATCAGTAGCTGTGCTACATTTCAGTAGACTTGCTGCAGCATCTGGAAAGCCGGTGGTCCCTGAGAAAGAGAGAAGTCTTAGAAACATTCAAGCTTAGACGAGTGAGGTAAAATTAGTTGAGATCAATTTCACCCTAAGATCTGAGATATATAAGTTTTAGTGTTGTCTCAGTAGCTCTGAGACAGTACCTAGAAATCAGTATTCTGCTCTATATCTTTGATATTGAAGTATATAGAAAGGAGTGTTAAAGAAAAAATCAACATCATAAAAGACTCCTTCAAGGTAATCTTTGGTGATACGTGCCTAACAAGACAGCTACACTCTTCAGGAAAAACTGACCACTGTCTTGCCTTGAGATTATGTGTTATGAACAATACTACCTTGCTCTAGTTGCACTCTGTTTCCAATGGTTCTATCAATCATGCTCTTTCTTCCCCCAG
Seq C2 exon
ATTAATTCAGTCTACAGTTTTAGTGGCTGTCTCAGCAATTTACAGCTCAATGGAAGATCAATTACTTCAGCTTCACAAACGTTTAGTGTAACTCCTTGCTTTGAAGGCCCATCAGAAGCAGGAACGTACTTTTCATCAGAAGGAGGATATGTCGTCCTTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000015001:ENSGALT00000024193:33
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:
PF0221019=Laminin_G_2=FE(39.8=100)
A:
NA
C2:
PF0221019=Laminin_G_2=PD(14.1=33.3)
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:
AGAGGCAAAAATATTGGTCGCT
R:
AGGACGACATATCCTCCTTCTGA
Band lengths:
302-896
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]