BtaINT0084201 @ bosTau6
Intron Retention
Gene
ENSBTAG00000003061 | LAMA5
Description
laminin, alpha 5 [Source:HGNC Symbol;Acc:HGNC:6485]
Coordinates
chr13:55415263-55415986:+
Coord C1 exon
chr13:55415263-55415402
Coord A exon
chr13:55415403-55415870
Coord C2 exon
chr13:55415871-55415986
Length
468 bp
Sequences
Splice sites
5' ss Seq
CTGGTGAGT
5' ss Score
10.1
3' ss Seq
ACTGGGCCTTGATGCTCTAGGAG
3' ss Score
7.82
Exon sequences
Seq C1 exon
GCCACGCCAACGCCAGCTTCTGCCCGCATGGCTATGGCTGCCGCACACTGGTGGTGTGCGAGGGCCGGGCCATCCTGGACGTGACTGACAGCGAACTCACTGTGACCGTGCGTGTGCCTGAGGGCCGGTGGCTCTGGCTG
Seq A exon
GTGAGTTGGAGGCTGGTGTCTGTCCTCCACCCATCATACCATTAGAGGTTACCCTGCCAGGGCGTGTCCCCTAGTCTTTACAGGCGACTCTGAGCCCAGTGCCAGGGCAGCAGGGTCTAGGGACCTCCAGACCCATCTTGAGAGGCCCTGGGGTCCATGACTCCCACCAGCTCCTGGGGGCCCTGCTGGTCAGAGTGGCCTTCTTGGAGGAGGAGGCCTGGAAGGAGACGGGGGTGTCTGGCAGAAAGGGATGGGGGCACCAGGAGCCCAATTGCCTCTTCACGACCTGTTCCTGAGCTTCTGTTTGGCAGCAAAGGCCGGCCTCCCCTCTGAGTGGCCAAGGGAGGGACCCATAACCTGGCAGCCTCGCTAGGGCCCAGGACAGGGTATGATTCTATCCGGCCGGATGCTGGCCTGCGGGAGAGAAGCGCTGGGCCCACAGGAGGTGACTGGGCCTTGATGCTCTAG
Seq C2 exon
GAGTACGTGCTGGTGGTCCCCGAGGAAGCCTATAGCTCCAGCTACCTGCGGGAGGAGCCCTTGGACAAGTCCTACGACTTCATCAGCCAGTGCGCCACCCACGGTTACCACATCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000003061:ENSBTAT00000003981:32
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:
NO
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:
CACGCCAACGCCAGCTTC
R:
CTGATGTGGTAACCGTGGGTG
Band lengths:
254-722
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development