GgaINT0098665 @ galGal3
Intron Retention
Gene
ENSGALG00000015056 | LAMA3
Description
NA
Coordinates
chr2:106365611-106366420:+
Coord C1 exon
chr2:106365611-106365722
Coord A exon
chr2:106365723-106366246
Coord C2 exon
chr2:106366247-106366420
Length
524 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAAA
5' ss Score
8.38
3' ss Seq
TGACTTTTTTTTTTTTTTAAATC
3' ss Score
3.05
Exon sequences
Seq C1 exon
GCTGAAATGAACTATAAAGCAGCTGAGATACTCTTAGATAATTTTGGACAAACTCATCAAAAAGGAAAGGATTTGGTTTCAAGAATACAAATAGTTGTCAATAATATACAAG
Seq A exon
GTAAAAATAGTTTATAGCCCCATAATAGGTTTTGTTTCATTAATTCATTAAAACAATATTCTTAATTAAGCATGGGAGTTGTTTTGTTTTTTTCAGAAATCACAAGTTAGACCTATCTGCAGAATTCACTCTTCCTATTAGGAATCTAATACACAATGCTAACTTAGGTGCCTGCCTTCCCTTTCGAGTGAATAGGTACAGAGGAACTTTACCAGTGGGAAATCTAAAGCACTTAATTGACCATCCTAACTTCAGCTCTGTTTCCATCTCTGTTGCTATTATAGGCTTTCTTAAATTAGAAGCTTAACATAATTGCTGAATTTGGTCATTCAGGACAAACTTCATGGCTGATGTTGTCTTGCTAACATGGGTACTTTTTAGCTTAGTACAGTTAGTGCAAAACAGATCTACTTCATTAACGGATTCAGGAATAGGCATGTCTTTTTGGAAAAGAGACCAGCCCGTCATTTGAATCTTCTGCATGGTGTGTCCTCTGTTTGAATTTGACTTTTTTTTTTTTTTAA
Seq C2 exon
ATCCAGTGCTCTTGGAACAAATAGCTGGTACAAACTCAGAAGTTAACAATTTGCCCTTGGGTGATGCTGCCAAAGAACTGGCTGAAGCTCAAAGAATGATGAGGGAGATGAGAAACCGCAACTTTGGCCAACTGCAAACAGATGCGGAGAAGGAGAGAACAGAAGCTCGGCTGT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000015056:ENSGALT00000024287:46
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=0.559
Domain overlap (PFAM):
C1:
PF060089=Laminin_I=FE(13.9=100)
A:
NA
C2:
PF060089=Laminin_I=FE(21.7=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Rat
(rn6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCTGAAATGAACTATAAAGCAGCTGA
R:
ACAGCCGAGCTTCTGTTCTCT
Band lengths:
286-810
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]