BtaINT0084397 @ bosTau6
Intron Retention
Gene
ENSBTAG00000022635 | LAMC1
Description
Bos taurus laminin, beta 2 (laminin S) (LAMB2), mRNA. [Source:RefSeq mRNA;Acc:NM_001046247]
Coordinates
chr22:51469952-51470441:+
Coord C1 exon
chr22:51469952-51470111
Coord A exon
chr22:51470112-51470192
Coord C2 exon
chr22:51470193-51470441
Length
81 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGG
5' ss Score
9.16
3' ss Seq
CTGAGACCCGTCTCTGCCAGAGC
3' ss Score
3.71
Exon sequences
Seq C1 exon
CTGCTGCAGGGCCCCCTGGGGGACCAGTACCAGACAGTGAGGGCCCTGGCTGAGCGCAAGGCCCAGGATGTGCTGGCTGCGCAGGCGCGGGCAGAGCAACTGCGGGACGAGGCTCGGGGCTTGTTGCAAGCCGCTCAAGACAAGCTGCAGCGGCTGCAAG
Seq A exon
GTGAGGATGGGGGTGGGAGGGCCCCAGAAAGGTGAGGCTCTCTGGGAGAAGGACCCTTCATCTGAGACCCGTCTCTGCCAG
Seq C2 exon
AGCTGGAAGGCACTTATGAGGAGAACGAGCGGGCGCTGGAGGGCAAAGCGGCTCAGCTGGACGGGCTGGAGGCCAGGATGCGCAGTGTGCTTCAGGCCATCAACTTGCAGGTCCAGATCTACAACACCTGCCAGTGACCCCTGCCCGAGGCGCCCCCCGGTCCCTAGCCTTACCCCGCACGCATGATCGCCTGTGCATGAACAGTCCTCAGCCTGGCAAGGCCCCCCCCAATAAACCAGTGTGAATTCC
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000022635:ENSBTAT00000057452:32
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.253 A=NA C2=0.431
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACCAGTACCAGACAGTGAGGG
R:
CCCGCTCGTTCTCCTCATAAG
Band lengths:
171-252
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]