BtaINT0084135 @ bosTau6
Intron Retention
Gene
ENSBTAG00000027181 | LAMA3
Description
laminin, alpha 3 [Source:HGNC Symbol;Acc:HGNC:6483]
Coordinates
chr24:33075571-33077846:-
Coord C1 exon
chr24:33077716-33077846
Coord A exon
chr24:33075665-33077715
Coord C2 exon
chr24:33075571-33075664
Length
2051 bp
Sequences
Splice sites
5' ss Seq
AAGGTACGT
5' ss Score
10.75
3' ss Seq
GAAATGCATGTGTGTTCCAGGTC
3' ss Score
7.11
Exon sequences
Seq C1 exon
CTAACTCTGTGTCACTGGGGCCAGAATTTAAGCTTGTTTTCAGCATTCGTCCGAGAAGCCTCACTGGAATTCTCATTCACATTGGAAGTCAACCCGGGCAGCACTTATGTGTTTATATGGAAGGAGGAAAG
Seq A exon
GTACGTGGTCCTCTGATGACATGGGAGCGGGTGTGAATCTGTATAAGAACCACGTTCTGTTCCTGGAGACCAAGGCAGGTGAAGTTATGGTAGAATGGAACCCGATCTCGTGTTTAAGAGACATAACTTCAGGGCTACTCTTTTGGTTTAGCAAGTAATTTGGTTGTCATGTTTTCTGTTCTTTATCTTTAAAGTTGGGCAGATGCAAACAGACTGGGCTGAATTTCAGCTCCACCACTTAGTTAAATGGCCCTAGGGACCTTACTTAACCTCTTTCAGACTCACTCTCTTTATCTTTAAAAAGAGAATAGGACTTCCCTGGCAGTCCAGTGGTGAAGACTCTGAGCTTCCGATGCAGGGGGTGCAGTTTCAGTCCCTCAAGGACCTAAGATCCCACATACTGTGTGGCGTGGCAAAAAAAGGGAAAAACTAATTAAAACGTGGAGAATAATGCTTATTATATCTGAGGGCTTTTGTCCAACAGAAGAGAAGCTGCTGTATGCAAACAGTTTCATTTTTCTCACCTCCGCTTCACCCTTGTCACGTCTCTCCTTTTATTCATAAGGGCAGGACCAGAATTCACGAGATGGATTTTCTCACCAGCTGTCTACACTGCGTTACACCCAGGCCCGTGGCCCTGTGTCCTCTGGGTCAGTTTCCCCTGACCCTGTCTACACGGCGCACCGGCCTTTCCCTGCAGTCAGGCTGATCACCGGGTTTGCATTCCGCCTTCCTTCAGCTTTTCCTGGATTCCTTCTTCAGTGCATGCTGCTGCTCCATCCTTCCCATCACTCACAGGCCTACTCCATATCTTATTTTTAACCCCCACATTTACCTCTTACCTTTTTAAAACATATTTATTTATTTATTTGGTTGCGCTGAGTCTTAGTTGTGGCATGTGGGATCGGACCCAGGCCCCCAGCACTGGGAGCATGAAATCTTAGTCACTGGACCACCAGGGAAGTCCATCTCTTACCTTTTCAAAAAAATCTCTTTAAAACCAAATTCTTCCAGGAAGCTTCTCTCAATTAAGACCTTAAGGCAAAGATTGATAACAATGCCATTTTCTTGTACCTCTATCCTTCCAGTTTATTAAACATGAGGGAAAACTCTCAGGATAAAATATAGTAGCCCAAACTCTGGGATGCTTTTTTTATTAAGCTGCAGCGTGAAGTGTGAGCAGTCCTCTCGTGGGCCAGAGGAACGAGCAGCTGTGCTTAACAGTGGTGCAGACAAGCCTCGCGTTTCATGGGAGGGGTTGGGAAATGCCTCCACTGAGAGCTTCTGGATAGGAAAACATCCGTCCCCCTGAAACAAAATCCAGACCCCGTAACCTTCCTAACAGCTGTGACACTGTTTAGCTTGAAAATTGCCCAAGAAGAGGCTGCACTGTCTGAGAACCTGCAAATTAAATGTAAATTATTTATCCACATACTTATTTCAGTCCTCTCATTTCCTTGACCTTGATTCAGCCCATGGAGGGTCCTGGCCCAGAGTGGGAATGCGGGATTCTGCACTATAGCACGTTGAGTGCCTGACCCTGGCATGTGCCCAGAGCAGACTCTGTTGGTTAGCCTGCTGAATTCCTCGGATGAGAACCCTCCTGAAGGCCTATGTTCACTGAATTACATAATTGGCTGGCCTTTTCAGCAGCGTGTAGGCCTCAGCCAGCATTTTTGCCTTCCAAATTTCGCATGTCCTCCTAAACAATCCTACTATCACATGCTAATAACTCAGGCAGGTCTTGGAGGCTAATCAGTAACTTTTGAGTTGATCTGATGGGATCAGGGTTGAGGGTCAGAGGAAAGGCTCCTTGCCTTTGGCATCGGGTTCAGGCCAGGCCCTGGATTTGCAGCTCACATGCCTGAAAGGGATGCTGCAGAGAGATGCTTATGTAGCCTTGGCCCCCATGTGACCACCTGGTACGGGTGGGGGCACCCATATTTCAAGGGCTCCTGGGAGGTCAGGGTGCAAGGGCTGGGAAGGGACTTGGCAGAACATGGGCTCCACCTGCCTTTCCGAAGGAAATAGGAAATGCATGTGTGTTCCAG
Seq C2 exon
GTCACGGCCTCTGTGGGCAGTGAGGCAGGTGAGGTCTTGACATCGGTGACACCCAAGCAAGCTCTGTGTGATGGACAGTGGCACTCGGTGGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000027181:ENSBTAT00000060991:72
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:
PF0221019=Laminin_G_2=PU(22.2=63.6)
A:
NA
C2:
PF0221019=Laminin_G_2=FE(24.6=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:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]