BtaINT0084222 @ bosTau6
Intron Retention
Gene
ENSBTAG00000003061 | LAMA5
Description
laminin, alpha 5 [Source:HGNC Symbol;Acc:HGNC:6485]
Coordinates
chr13:55423604-55424516:+
Coord C1 exon
chr13:55423604-55423715
Coord A exon
chr13:55423716-55424345
Coord C2 exon
chr13:55424346-55424516
Length
630 bp
Sequences
Splice sites
5' ss Seq
GTGGTAGGC
5' ss Score
5.59
3' ss Seq
CATTCCCCAAACCCCCACAGAGC
3' ss Score
5.97
Exon sequences
Seq C1 exon
GCCACCAGAGCCCGAGCCCAGGCTGGCCAACTACTGGACAGCACCGAGGCCACGCTGGGCCGGGCACAGACGCTGCTGGCAGCCATCCGGGCTGTGGACCTTGCCCTGAGTG
Seq A exon
GTAGGCGCTGGCCCAGCTGGGCGGGTGGGGAGAGTTGAGCAGAGTGATATTCCGAGCTGAGGGCAGCGGGTGTGCCTCTGCGGGCTTGGCCTTAAACACACTTTGGGGTGTTTAGACAGGGAGATGGTGCCCTGGTCACAGAAACAGCAGGTCCGAGTAGGGAGGGGAAAGGGGCAGCCCACGTGGCCAGAACAAGAGGGCTGGGCAGGGACCACCTGCGAAGTGGGAAAAGTGGGTGAGCCTTAGTTACAACCTGACACGTGTTACAAGAAGAGATCAGAAGGGACCAGGCCCATGCCAGGGTCTAGAAGGAGATGAAATTGCAACTGAGCGCTGGGCTGGGAGGAGAGATGGTTAAACCAGGGGCCCAAGGAGTGGGCTGAGTAAAGGGAGTGGTGGGGGTATTGCTGTGGGGGTTGCAGGAGGCAAGGGGACATGGGCCAGAGGCCAGGCGGGCCTCAGAGTCGTGGCCTAGAGCAGGATCTCTGTCCAGGGCCTGCCAGCTCATGTGTGGGGTGTCTGAAGAGGCTTAGCCAGGGGCTTCTGGATGGAAGCTAGTGGGCAGAGGTCTGCTTGGCAGCGGGCTAGCCCTGGGCCCTGACAGCCCGTTCATTCCCCAAACCCCCACAG
Seq C2 exon
AGCTAGAGTCCCAGACGGACCGCCTGGCACCGGCCAATGCCTCAGTCCCATCGGGTGAGCAACTGCGCCGGGTGCTGGCCGAAGTGGAACGGCTGCTCCAGGAGATACGAGCACGTGACCTGGGGGTTCCACGAGCAGCTGCTGAGGCCGAGCTGAGGGAGGCCCAGCGAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000003061:ENSBTAT00000003981:51
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.368 A=NA C2=0.293
Domain overlap (PFAM):
C1:
PF060089=Laminin_I=FE(14.0=100)
A:
NA
C2:
PF060089=Laminin_I=FE(21.5=100)
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:
CCCAGGCTGGCCAACTACT
R:
CTGGGCCTCCCTCAGCTC
Band lengths:
263-893
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development