GgaINT0036794 @ galGal4
Intron Retention
Gene
ENSGALG00000004627 | LAMC2
Description
laminin, gamma 2 [Source:HGNC Symbol;Acc:HGNC:6493]
Coordinates
chr8:7515189-7515611:+
Coord C1 exon
chr8:7515189-7515326
Coord A exon
chr8:7515327-7515466
Coord C2 exon
chr8:7515467-7515611
Length
140 bp
Sequences
Splice sites
5' ss Seq
AAAGTAAGT
5' ss Score
9.72
3' ss Seq
TCACTCCTCTATCTGCACAGGTA
3' ss Score
9.63
Exon sequences
Seq C1 exon
CCACATGCAGGCAGCCAACATCATCGAGCAGGCGGCGAAGGCAGCGCAGGACGACTCACAGCAGGCACTGGAGCTGCTGCAGGCAGCTGTGAGTGGGGGGGCAGAGGTGCCAGGCTCCCTGCAAGGGCTGCTCAGAAA
Seq A exon
GTAAGTGCAGGGAAAAGGGCATGGGGTGGAACCCTTTTTCCATAACCCATTGCCTGCATCCTTGGCTACATTTCAGAAATGTTGGATGCAGGATGGTAGGGTTTGGGTTTGCCCTTGGGTTCACTCCTCTATCTGCACAG
Seq C2 exon
GTATGAGGAGCTGAAGTTGCTGGCTGGAGGCCTGGAGGCTGATGCCAACAGGATAGCCACTGAGGCAGACAAGGCTTATCAGAGCAGCCTGATGCTCCTCAGCTCTCTGTCTCGCCTGACCAAGACCAGTTTTGGGTCCTTTGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004627:ENSGALT00000007372:16
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.064 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
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATGCAGGCAGCCAACATCATC
R:
TTGGTCAGGCGAGACAGAGAG
Band lengths:
257-397
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]