GgaINT0098648 @ galGal3
Intron Retention
Gene
ENSGALG00000015056 | LAMA3
Description
NA
Coordinates
chr2:106338376-106339008:+
Coord C1 exon
chr2:106338376-106338515
Coord A exon
chr2:106338516-106338892
Coord C2 exon
chr2:106338893-106339008
Length
377 bp
Sequences
Splice sites
5' ss Seq
TTGGTGAGT
5' ss Score
9.27
3' ss Seq
TTAGCTTTTTCTGTTTTAAGGAA
3' ss Score
8.4
Exon sequences
Seq C1 exon
GTTCCTTCAGTGCTTCATTCTGCCCTCATTCTTCTGGCTGTCGGGATCAGGTGATTGCAGAAAACCAAATTGAGCTTGACATTTCTGAACCTGAAGTCTCTGTTACAGTAATGATACCTGACAGAAGAATGCTGGTTTTG
Seq A exon
GTGAGTTTATTACGTAAGTGTACTTGAAAATACTCTTCCAACTTTACCAGCCATTTAGAGATAGGTACAAAGGTGAAAGCTAAGAAGAAAGGATGTGATTTTTAATGTAGTGTTTCAAATTGTTAGAATCTTGTACACTGCTTTTGTTTTTAAGATATCATACACTGCTTTTATTGTATGCTGCTTTTAGAGTAAATTAGAGGAGGAGGGAGGTAACATATCTTCCAAGTATGTTTTCCTACCTTTTTGTTAAAATGTTATATTTTGGGGGGAAAATTCAGTACTCAGAAAGAAGTGACATTAAAAGATAGAAATGCCTCAGCTTGTTTGTTTTGTTTCTTTCCTGAAATGTACAATTTAGCTTTTTCTGTTTTAAG
Seq C2 exon
GAAAGTGTCTTAGTTGTTCCAGCAGACAGCTACAGTTACAAAATTCTTGACAAAAAGACTGTGGACAAGTCATTTGATTTTATCACCCAATGTGGAGGGAACAGTTTTCACATTGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000015056:ENSGALT00000024287:29
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:
NO
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:
TCCTTCAGTGCTTCATTCTGCC
R:
TCAATGTGAAAACTGTTCCCTCCA
Band lengths:
254-631
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]