BtaINT0084191 @ bosTau6
Intron Retention
Gene
ENSBTAG00000003061 | LAMA5
Description
laminin, alpha 5 [Source:HGNC Symbol;Acc:HGNC:6485]
Coordinates
chr13:55409876-55410295:+
Coord C1 exon
chr13:55409876-55410032
Coord A exon
chr13:55410033-55410156
Coord C2 exon
chr13:55410157-55410295
Length
124 bp
Sequences
Splice sites
5' ss Seq
CAGGTGCGG
5' ss Score
9.13
3' ss Seq
TGCCCCCAACCCCACTGCAGCCC
3' ss Score
6.06
Exon sequences
Seq C1 exon
GCCTGCTCAGGACCACTATCTCCCTGACTTGCACCACCTGCGCCTGGAGCTCGAGGAGGCGGCCACGCCTGAGGGCCACGCTGTGCGCTTCGGCTTCAACCCCCTGGAGTTCGAGAACTTCAGCTGGAGGGGCTATGCACAGATGACACCCATCCAG
Seq A exon
GTGCGGGCTCTGTGTTCCTGGCATGATGGCTGGCAGAGGGCGGGCGGGCCCCTGAGCTCATGGGTGTCGGCTGAGCATGACCAGGAGGGCGCCCCAACTTTCCGTGCCCCCAACCCCACTGCAG
Seq C2 exon
CCCAGGATCGTGGCACAGCTGAACCTGACCTCCCCCGACCTCTTCCGGCTCGTCTTCCGTTACGTCAACCGCGGGCCCACGAGTGTGAGCGGGCGGGTTTCCATGCGAGACCAGGACAAGTTCACCACGTGTCCCAACT
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000003061:ENSBTAT00000003981:22
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=0.234
Domain overlap (PFAM):
C1:
PF0005319=Laminin_EGF=PD(25.0=20.8)
A:
NA
C2:
NO
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:
ATCTCCCTGACTTGCACCACC
R:
GTCCTGGTCTCGCATGGAAAC
Band lengths:
257-381
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development