GgaINT0098687 @ galGal4
Intron Retention
Gene
ENSGALG00000015056 | LAMA3
Description
laminin, alpha 3 [Source:HGNC Symbol;Acc:HGNC:6483]
Coordinates
chr2:102888544-102889312:+
Coord C1 exon
chr2:102888544-102888715
Coord A exon
chr2:102888716-102889122
Coord C2 exon
chr2:102889123-102889312
Length
407 bp
Sequences
Splice sites
5' ss Seq
CAGGTAATA
5' ss Score
8.55
3' ss Seq
ATGCTTACTTTCCACTACAGGTT
3' ss Score
8.58
Exon sequences
Seq C1 exon
TCTTACAGGATGAAAAATACTTTGGTCATTTGACATATTCTAATGTGCAGCATGACCAGCAAAACTACACTTTACTAACTCAGTTAAATGTCAACAGTGAGGTGTATCTCCTTGGAAACACCCCCAACAGTTTTGTATCCTACATGTTTTCTTCATCTTCACCTATGGACAG
Seq A exon
GTAATAGAAATGTTATCTGTTCACCTCCCAATACTTGAATCTTCAAAGCTGCTTGAATCTGTAAGTGCTAAAAGCCAGGATTCTTAGGCCTGTTTACATCTTTTGGCACAACAGAATAGTGATTCTAAAAGTTCAGGAAATTTTCTTTTTCCCTACTTTCCCAAACTATGTGGATTGGCTTGGATATGGTGGGCAGCTACAGTGCATGTTGATGCAAAGTTCTAAGCCTGAATAAGTCAACTTTCATTCACATTCAGAAGACAGGCAATGCAGAACACTGCGATTCCACCCAAAATGTCTTCTGCATTTCACAAATTGAGTTTCACTGGTGCTTTTCTGGAGAACAGGGAGAATACAACACCTGACAAAATAGATGTATGTTTGAATATGCTTACTTTCCACTACAG
Seq C2 exon
GTTACATTTTTCTGTGGATATACGAACTCGATCATCAAGAGGATTAATAGTTTTTATGGAGGGAAGGTCTGAGAACTCTTACACAGCTCTCCACATTTCAAAAGGCCGTTTTGTCTTTTCGCTTGGTTCTGGAAGAAGACGAATCAAGATCAAAACTAGTGTTAAATACAATGATGGGCAATGGCATACT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000015056:ENSGALT00000024287:69
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:
NO
A:
NA
C2:
PF0221019=Laminin_G_2=PU(44.4=87.5)
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:
ACAGGATGAAAAATACTTTGGTCAT
R:
AGTATGCCATTGCCCATCATTGT
Band lengths:
358-765
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]