BtaINT0084131 @ bosTau6
Intron Retention
Gene
ENSBTAG00000027181 | LAMA3
Description
laminin, alpha 3 [Source:HGNC Symbol;Acc:HGNC:6483]
Coordinates
chr24:33081000-33082933:-
Coord C1 exon
chr24:33082750-33082933
Coord A exon
chr24:33081141-33082749
Coord C2 exon
chr24:33081000-33081140
Length
1609 bp
Sequences
Splice sites
5' ss Seq
ACGGTGAGC
5' ss Score
9.44
3' ss Seq
TTATTTTCTTTATCCTTAAGGTG
3' ss Score
9.25
Exon sequences
Seq C1 exon
GTCACAGTTTGCCGTGGATGTGCTGACAACAGCGTCCAGAGGGCTCGTGTTTTATACGGGGACTAGGAGCTCCTTTATGGCTCTTTATCTTTCAAAAGGACGGCTGGTCTTTGCCCTGGGGGCAGAAGGGAAAAAACTGAAACTCAAAAGCAAAGAGAAGTGCAATGACGGGAAGTGGCACACG
Seq A exon
GTGAGCTCTGGGGCTGCCTTAGATCCTCCCCCGGGGCCAAGTTCACTGCCAGTAGCTGAAGACGGAAGTCTCAGCATTCTTCCAGGCAGGAGGGCACGAGCACTGGGAGAGCGCGTGTGGTTAGAGGCACCGAGCACCCAGCATCTCAGCCCAGAGACTCCTGCACGTGCCATGCATGGATGTCATCCTAGATGCCAAGACGGGCTTTCCTCTCTGCTTCTTCACATCCTCCCCGCCTCACAGTTCTGTGGACTGCTCCTTGCTTGATCCCCTGGACCATTTTTCTCCTTCAAGACAATTTCCAGGTCTCCAGAGCCTTCTCTGAGTCTGGAATGCTTTCTCTAGAGCACAGGTATAAGGGCCCACATCCTCAGCATCTCAGCTCTTGCCTAAAGGCATCCTGGGGTTAAAGAAATGCAGTTTAAGGCAAGTGTGTGCATGCATGCTAAATTGCTTCAGTCATGTCTGACTCTTTGTGACCCTATACACTGTAGCCCACCAGGCTCCTCTGTCCATGGAATTCTCCATGGCAAGAATACTGAAGTAGGTTGCCATTCCCCTCTCCTGGGGATCTTCCAAGTCAGGGATCGAACCCAGGTCTCTTGCATTACAAGCAGATTCTTTACCATCTGAGCCACCAGGGATGCAGGATGAGGCAGGCCCAGGTCATTTAAGCACTGGATTAGGTGAGGATTTGGGATTTTATTCTGAGTATCTGAAGCTTAAAAAAAAAAAAAGCATTACATGATCAGCTTTATCTTTTCAAAACCCTCTTTAACTGAAGCATTTAAAAAGGAGCAAAAGTAGAAAACCAGATGGATGCTGTTGCCTTTGGTTCAAGAGACCAGGGCGGAGGGGGAGAGAGTGGATGTGTCTGAAGGCAGAGCCCAGAGTCCTGTGATTTTGGACCAGCACTGGGGTCAGTAGTGGAGATGAGATGGAGAAGATGTGGGGAAGGTGGGTGTGGCTGGGGAAGAATGGTTCTGTTGTGAATATCCTTCGATCCAGTTGCCTGTAAGACATCCACGCCCAGGTGTCAGAAGACGCTGGAGGCCAGCAGTCACAGCTGGGCATTTACACTGGGGAGCCGTTAGTGAATAGTCTGGTAGCCATGAGGTGGCAGAGTCCACACCAGAGTCCAGGGATCCTGACTTTTAGCAGAGTTGAAAACATTTGCTCCTCTTGTTAGACAAGAAGTAGCCCTCGGTCTCTTCTCCAGGGCCCCTGCTCAGAGGAGCGTGTGGCTTTCCCTGTCTCAGCTCTGCACAAACTCTTCCTTCCCCTGCGTTGCATGGATGTGTATTTATTTATGATCCTTTGACTCCAGTTATTTGTCTTTTGTCTAAGTTTCCAGGCCAGCTATTTATTTTTGTTCACTTATGAGAGTCTTTTTTTAGTTCATGTTTTAAGCTCACTCTGGTTAATACCTAACATAATCTTACAAAATAAGGATGATGAAAAACACTAGGGAAAAAAATCTCTTGATTTTTTTCAAAGCTACTTGAAGGGACAGAAACTTTTTTTTTTTTAATTCCTGTGACCACTAATAAACTACAATGCCAGCTGTTGAAGGTAAGAATACAGTTAACTTATTTTCTTTATCCTTAAG
Seq C2 exon
GTGACATTTGGGCAAGATGGAGGCAAGGGGCGCTTGGTTGTGGATGGTCTGAGGACCCGGGAGGGACATCTGCCTGGAAATTCCACCATCAGCCTCAGAGCACCAGTTTACCTGGGATCGGCTCCATCAGGGAAGCCAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000027181:ENSBTAT00000060991:69
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=0.043
Domain overlap (PFAM):
C1:
PF0221019=Laminin_G_2=PU(44.6=87.1)
A:
NA
C2:
PF0221019=Laminin_G_2=FE(38.0=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCACAGTTTGCCGTGGATGTG
R:
CTTTGGCTTCCCTGATGGAGC
Band lengths:
324-1933
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]