BtaINT0084249 @ bosTau6
Intron Retention
Gene
ENSBTAG00000003061 | LAMA5
Description
laminin, alpha 5 [Source:HGNC Symbol;Acc:HGNC:6485]
Coordinates
chr13:55431673-55432092:+
Coord C1 exon
chr13:55431673-55431835
Coord A exon
chr13:55431836-55431958
Coord C2 exon
chr13:55431959-55432092
Length
123 bp
Sequences
Splice sites
5' ss Seq
TAGGTCTGT
5' ss Score
3.44
3' ss Seq
CTCACGGCCCCTCCTTGCAGACA
3' ss Score
10.48
Exon sequences
Seq C1 exon
GTGGCCATCAGCAGCCCTGAGTTCAGGGGTTGTGTGAAGAGGCTGAGGCTGGATGGGCGGCTCCTGAGGGCCCCCACGCGGATGGTGGGGGTCACACCCTGCTTCTCAGGGCCCTTGGAGAAGGGCCTGTTCTTCACAGGCAGCGGGGGAACCGTCACTCTAG
Seq A exon
GTCTGTCTCTGACTGGTGCCCTCCCAGTCCTCTTGGGGTGGCCGGGGGGGGCAGAATAGTGATACCCAGAAAGGGTGGGGCCTGGGGCCAAAGCCCTCCTCCTCTCACGGCCCCTCCTTGCAG
Seq C2 exon
ACACCCTGGGGGCCACACTGCCCGACGTAGCCCTGGAGCTGGAGGTGCGGCCCCAGACAGCCACCGGCCTGGTCTTCCACTTGGGCCGGGGCCAGACGCCCCCGTACCTAGAGCTGCAGGTGCTGGGGAAACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000003061:ENSBTAT00000003981:76
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.018 A=NA C2=0.022
Domain overlap (PFAM):
C1:
PF0221019=Laminin_G_2=PD(14.3=34.5)
A:
NA
C2:
PF0221019=Laminin_G_2=PU(24.0=64.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGTTGTGTGAAGAGGCTGAGG
R:
ACCTGCAGCTCTAGGTACGG
Band lengths:
257-380
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development