BtaINT0084238 @ bosTau6
Intron Retention
Gene
ENSBTAG00000003061 | LAMA5
Description
laminin, alpha 5 [Source:HGNC Symbol;Acc:HGNC:6485]
Coordinates
chr13:55429247-55429613:+
Coord C1 exon
chr13:55429247-55429372
Coord A exon
chr13:55429373-55429464
Coord C2 exon
chr13:55429465-55429613
Length
92 bp
Sequences
Splice sites
5' ss Seq
GCGGTAAGG
5' ss Score
9.63
3' ss Seq
CCTGTGCCGGCGCCTCCCAGATC
3' ss Score
6.7
Exon sequences
Seq C1 exon
GACCAGTTCCTGTGCCTGGCTGTGCAAGAAGGCAAACTAGTGCTCCTCTATGATTTTGGCGCAGGCCTGAAGGAGGCCGGCCCGCTGCAGCAGCCTCCGCCACAGCTGACTGCAACCAGCAAGGCG
Seq A exon
GTAAGGCCGGCTTCAGAGAAGGCCCTGGGTGGGGAGGGGCAGTGGGGGTCGCAGCTCCCCTGAAGGTGCCCACCTGTGCCGGCGCCTCCCAG
Seq C2 exon
ATCCAGGTGTTCCTGCTGGGGGGCAATCGGAAGCGCGTGCTGGTGCGCGTGGAGAGGACCACGGTGTTCAGCGTGGAGCAGGAGAACGTGCTGGAGCTGGCCGACGCCTACTACCTGGGGGGCGTGCCGCCCAGCCAACTGCCTGCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000003061:ENSBTAT00000003981:66
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.119 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0221019=Laminin_G_2=FE(31.3=100)
A:
NA
C2:
PF0221019=Laminin_G_2=FE(37.4=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:
CTGGCTGTGCAAGAAGGCAAA
R:
CTGAACACCGTGGTCCTCTCC
Band lengths:
182-274
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development