BtaINT0084203 @ bosTau6
Intron Retention
Gene
ENSBTAG00000003061 | LAMA5
Description
laminin, alpha 5 [Source:HGNC Symbol;Acc:HGNC:6485]
Coordinates
chr13:55417065-55417771:+
Coord C1 exon
chr13:55417065-55417276
Coord A exon
chr13:55417277-55417566
Coord C2 exon
chr13:55417567-55417771
Length
290 bp
Sequences
Splice sites
5' ss Seq
GGCGTGAGT
5' ss Score
7
3' ss Seq
GGCTGTGCCTGCACCCACAGCCT
3' ss Score
6.09
Exon sequences
Seq C1 exon
CCCCTCCAGCTCATCCGCCTTCTGCCGCAGTGCTGCCACCTCCCTCTCACTCTTTTACAACAACGGGGCTCGGCCGTGCGGCTGCCACGAGGTGGGCGCCATGAGCCCCACATGCGAGCCTTTTGGGGGCCAGTGTCCCTGCCGTGCCCATGTCATCGGCCGTGACTGCTCCCGCTGTGCCACCGGCTACTGGGGCTTCCCCAGTTGCAGGC
Seq A exon
GTGAGTACCCCAGTCCCGGGAGTGCTCAGGGGTGCCCGCCAGGCAACAGTGGTCAGGAGAATGTTCTGGAGCTGGTGGACTCGTGCTGCCCCTCCTGTTGTCCGGAAGGTCCTGGGGACCGGATAGCAGTTTTGAGCACCTGACCTCACGTCAGAGGAGCTGCCTGGGAGTTGGGGCCCGGAGTGGGTGGATCCAGGCTGGTATAGGGTGGCCTCGCTCCCCGCCCCATGTTCAATGCCCCCAGGGCCACCATCGGGCCTTCTGACCGGGGGCTGTGCCTGCACCCACAG
Seq C2 exon
CCTGTGACTGCAGCGGCCGCCTCTGTGATGAGCTCACAGGCCAGTGCATCTGCCCCCCGCGCACCATCCCGCCCGACTGCCTCGTCTGCCAGCCCCAGACCTTTGGCTGCCACCCCCTGGTGGGCTGTGAGGAGTGTAACTGCTCGGGGCCCGGTGTCCAGGAGCTCATGGATCCCACCTGCGATGCGGACAGTGGCCAGTGCAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000003061:ENSBTAT00000003981:34
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=0.000
Domain overlap (PFAM):
C1:
PF0005319=Laminin_EGF=PU(91.8=62.5)
A:
NA
C2:
PF0005319=Laminin_EGF=PD(6.1=4.3),PF0005319=Laminin_EGF=PU(46.9=33.3)
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:
TTTTACAACAACGGGGCTCGG
R:
GCAGTTACACTCCTCACAGCC
Band lengths:
303-593
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development