BtaINT0084106 @ bosTau6
Intron Retention
Gene
ENSBTAG00000027181 | LAMA3
Description
laminin, alpha 3 [Source:HGNC Symbol;Acc:HGNC:6483]
Coordinates
chr24:33127573-33128058:-
Coord C1 exon
chr24:33127947-33128058
Coord A exon
chr24:33127741-33127946
Coord C2 exon
chr24:33127573-33127740
Length
206 bp
Sequences
Splice sites
5' ss Seq
ACAGTAAGA
5' ss Score
5.96
3' ss Seq
AATAGCTTGATGTTTTCCAGTTC
3' ss Score
5.29
Exon sequences
Seq C1 exon
GTTCAAATAAATTCCAGAAAAGCACAAACATTATATAACAACATTGATCGGACAACCCAAAGTGCAAAAGAGCTGGACTCGAAGATTAAAAATGTCATCCGGAATGTGCACA
Seq A exon
GTAAGAAGAGTTACTCAGCCCAATTAAATATCTTTTATACTACTTTAGTCTTTGTTGTACAAAGAAAGAGTTCAGCATTATGAAAAAGAGCCCATAGTGATACTAAAAAACCAATACAAGCCCTCTATCAAAGTTCCTGCTTCTTTTCTTAGTGGTCTCCTGGAGTCCAGAATTCCCAGTTTAATAAATAGCTTGATGTTTTCCAG
Seq C2 exon
TTCTCGTGAAGCAGATATCTGGGACGGAGGGAGATGGAAACAGGTTGCCTTCAGGTGATTTTTCCAGAGAGCTGGCTGAAGCAGGGCGCATGATGAGGGAACTGAGGACCCGCAACTTTGGGAAGCACCTGAGGGATGCCGAAGCTGAAAGAAGAGAGGCTCAGCAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000027181:ENSBTAT00000060991:46
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.395 A=NA C2=0.737
Domain overlap (PFAM):
C1:
PF060089=Laminin_I=FE(13.9=100)
A:
NA
C2:
PF060089=Laminin_I=FE(21.0=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTTCAAATAAATTCCAGAAAAGCACA
R:
TGCTGAGCCTCTCTTCTTTCAG
Band lengths:
278-484
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]