GgaINT0098687 @ galGal3
Intron Retention
Gene
ENSGALG00000015056 | LAMA3
Description
NA
Coordinates
chr2:106384643-106385430:+
Coord C1 exon
chr2:106384643-106384833
Coord A exon
chr2:106384834-106385240
Coord C2 exon
chr2:106385241-106385430
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
AGTAAATGTTTTGATTCTGTCTTACAGGATGAAAAATACTTTGGTCATTTGACATATTCTAATGTGCAGCATGACCAGCAAAACTACACTTTACTAACTCAGTTAAATGTCAACAGTGAGGTGTATCTCCTTGGAAACACCCCCAACAGTTTTGTATCCTACATGTTTTCTTCATCTTCACCTATGGACAG
Seq A exon
GTAATAGAAATGTTATCTGTTCACCTCCCAATACTTGAATCTTCAAAGCTGCTTGAATCTGTAAGTGCTAAAAGCCAGGATTCTTAGGCCTGTTTACATCTTTTGGCACAACAGAATAGTGATTCTAAAAGTTCAGGAAATTTTCTTTTTCCCTACTTTCCCAAACTATGTGGATTGGCTTGGATATGGTGGGCAGCTACAGTGCATGTTGATGCAAAGTTCTAAGCCTGAATAAGTCAACTTTCATTCACATTCAGAAGACAGGCAATGCAGAACACTGCGATTCCACCCAAAATGTCTTCTGCATTTCACAAATTGAGTTTCACTGGTGCTTTTCTGGAGAACAGGGAGAATACAACACCTGACAAAATAGATGTATGTTTGAATATGCTTACTTTCCACTACAG
Seq C2 exon
GTTACATTTTTCTGTGGATATACGAACTCGATCATCAAGAGGATTAATAGTTTTTATGGAGGGAAGGTCTGAGAACTCTTACACAGCTCTCCACATTTCAAAAGGCCGTTTTGTCTTTTCGCTTGGTTCTGGAAGAAGACGAATCAAGATCAAAACTAGTGTTAAATACAATGATGGGCAATGGCATACT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000015056:ENSGALT00000024287:68
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]