BtaINT0084392 @ bosTau6
Intron Retention
Gene
ENSBTAG00000022635 | LAMC1
Description
Bos taurus laminin, beta 2 (laminin S) (LAMB2), mRNA. [Source:RefSeq mRNA;Acc:NM_001046247]
Coordinates
chr22:51468473-51469362:+
Coord C1 exon
chr22:51468473-51468821
Coord A exon
chr22:51468822-51469154
Coord C2 exon
chr22:51469155-51469362
Length
333 bp
Sequences
Splice sites
5' ss Seq
GCCGTGAGC
5' ss Score
3.48
3' ss Seq
CCTTGCCTGTGTCCCCATAGAGG
3' ss Score
10.94
Exon sequences
Seq C1 exon
GTGTGTGGGTCCCCAGGAGATGCGCCCTGTGCTACGAGCCCCTGCGGGGGTGCCGGCTGCCGGGATGAGGAGGGGCAGCCCCGCTGTGGGGGCCTCAGCTGCAGTGGGGCAGCAGCCATGGCGGACCTGGCGCTGGGTCGGGCCCGCCACACACAGGCAGAGCTGCAGCGGGCGTTGGCAGAAGGCGGTGGCATCCTCAGCCAGGTAGCTGAAACCCGTCGACAGGCAGGCGAGGCCCAGCAGCGGGCCCAGGCAGCCCTGGACAAGGCTCATGCGTCCAGGGGCCAGGTGGAGCAGGCCAACCAGGAACTGCGGCAACTTATCCAGAATGTGAAAGACTTCCTCAGCC
Seq A exon
GTGAGCCTCCCTGTGGCCCAGGCCACGTGGTGTTTCCCTTGTGTCTGTGTTCATACTTGAGTCAGAGCCCACACGGCACCTGTGTTTGTGACCACCAATGGGCAGGGACTCAGGATGTGTGGACCCCGAGCCCTGCCTTTATGTCATCCCAAAGTCCATGGCCCCAAATCTGTGTCCCATGTAGAGTCCTGTCCTTGTGGTTACTAGCTGCTGGTTACTGTCCTTCTGCCTGCTAGCAAATCCATACCCCATGTGTGGTCTCTGAGTCCATATCCCCAGATCGTGTCCCTGTGCCCAAGCTCTGACCTTAAGTCCTTGCCTGTGTCCCCATAG
Seq C2 exon
AGGAGGGGGCTGACCCTGATAGCATTGAGATGGTGGCCACCCGGGTGCTAGAACTCTCCATCCCAGCGTCGCCTGAGCAGATCCAGCAGCTGGCGGGTGAGATTGCAGAGAGGGTCCGGAGCCTGGCAGATGTGGACACAATCCTGGCGCGCACTGTGGGAGACGTGCGCCGGGCCGAGCAGCTCCTGAACGACGCGCGGCGGGCACG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000022635:ENSBTAT00000057452:28
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.470 A=NA C2=0.329
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:
CCACACACAGGCAGAGCTG
R:
ATTGTGTCCACATCTGCCAGG
Band lengths:
345-678
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]