BtaINT0084381 @ bosTau6
Intron Retention
Gene
ENSBTAG00000022635 | LAMC1
Description
Bos taurus laminin, beta 2 (laminin S) (LAMB2), mRNA. [Source:RefSeq mRNA;Acc:NM_001046247]
Coordinates
chr22:51465419-51465832:+
Coord C1 exon
chr22:51465419-51465611
Coord A exon
chr22:51465612-51465688
Coord C2 exon
chr22:51465689-51465832
Length
77 bp
Sequences
Splice sites
5' ss Seq
TGCGTGAGT
5' ss Score
7.55
3' ss Seq
CCTGTTCCCTCTCCCCACAGCCT
3' ss Score
12.88
Exon sequences
Seq C1 exon
CTGGTGCTGCTGCCCCGTGTCCTGGTGCTGGAGATGTTTAGCGGGGGTGACGCAGCCTCTCTCGAGCGCCGGGCCACCTTTGAACGCTACCGCTGCCACGAGGAGGGTTTGATGCCCAGCAAGCCCCTTCCTTCTGAGGCCTGTGCCCCCCTCCTCATCAGCCTGTCCACGCTGCTCTACAACGGAGCCCTGC
Seq A exon
GTGAGTGTGTGTGGTGTGGCTGGTGGGGTGGAGGTGTGGGGGCTCAGCCTGACCTGCCCTGTTCCCTCTCCCCACAG
Seq C2 exon
CCTGTCAGTGTGACCCCCAGGGCTCCCTGAGCTCCGAGTGCAACCCCCATGGCGGTCAGTGCCGGTGCAAACCTGCAGTGGTTGGGCGCCGCTGTGACCTCTGTGCCCCTGGCTACTATGGCTTTGGCCCCACGGGTTGTCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000022635:ENSBTAT00000057452:18
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:
PF0005319=Laminin_EGF=WD(100=93.9)
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:
CCTCCTCATCAGCCTGTCCA
R:
GCCAAAGCCATAGTAGCCAGG
Band lengths:
172-249
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]