BtaINT0084382 @ bosTau6
Intron Retention
Gene
ENSBTAG00000022635 | LAMC1
Description
Bos taurus laminin, beta 2 (laminin S) (LAMB2), mRNA. [Source:RefSeq mRNA;Acc:NM_001046247]
Coordinates
chr22:51465689-51466283:+
Coord C1 exon
chr22:51465689-51465832
Coord A exon
chr22:51465833-51466051
Coord C2 exon
chr22:51466052-51466283
Length
219 bp
Sequences
Splice sites
5' ss Seq
AAGGTATTC
5' ss Score
6.8
3' ss Seq
AGTCTCTGCCTTGCCCCCAGCCT
3' ss Score
6.16
Exon sequences
Seq C1 exon
CCTGTCAGTGTGACCCCCAGGGCTCCCTGAGCTCCGAGTGCAACCCCCATGGCGGTCAGTGCCGGTGCAAACCTGCAGTGGTTGGGCGCCGCTGTGACCTCTGTGCCCCTGGCTACTATGGCTTTGGCCCCACGGGTTGTCAAG
Seq A exon
GTATTCACTGGCCTCATCCCTCCAGTTGTCTGCCCCCCTCCCCACTACTGTTCTTCCTCCTTTTTCTGGTGCTACTTCTTCCTTCTCATTCTGGCTTCGGACCCCACATCCTCAGCCCTGATCACTTGACCTTCTCTTCCATCCCCTGACCTTCCACCCTGACCTCACCCAGCTTCCCCTCAAAGCCCCTCCCTGGCTCAGTCTCTGCCTTGCCCCCAG
Seq C2 exon
CCTGCCAGTGCAGCCCTGAGGGGGCGCTCAGTGGCCTGTGTGATGCCACCAGTGGGCAGTGCCCCTGCCGAGCTGGTGCCTTTGGGCTTCGCTGTGACCGCTGCCAACGAGGCCAGTGGGGGTTCCCGAGCTGCCGGCCCTGCGTCTGCCATGGGCACGCAGACGAGTGCGACCCCAACACTGGCACTTGCCTGGGCTGCCGGGACCACACTGGGGGTGAGCACTGTGAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000022635:ENSBTAT00000057452:19
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:
PF0005319=Laminin_EGF=WD(100=93.9)
A:
NA
C2:
PF0005319=Laminin_EGF=WD(100=59.0),PF0005319=Laminin_EGF=PU(62.5=38.5)
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:
CTGAGCTCCGAGTGCAACC
R:
CAAGTGCCAGTGTTGGGGTC
Band lengths:
308-527
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]