BtaINT0084393 @ bosTau6
Intron Retention
Gene
ENSBTAG00000022635 | LAMC1
Description
Bos taurus laminin, beta 2 (laminin S) (LAMB2), mRNA. [Source:RefSeq mRNA;Acc:NM_001046247]
Coordinates
chr22:51469155-51469601:+
Coord C1 exon
chr22:51469155-51469362
Coord A exon
chr22:51469363-51469459
Coord C2 exon
chr22:51469460-51469601
Length
97 bp
Sequences
Splice sites
5' ss Seq
ACGGTCTGA
5' ss Score
2.27
3' ss Seq
TGACTCCCTCTCTTCCCTAGGAG
3' ss Score
11.33
Exon sequences
Seq C1 exon
AGGAGGGGGCTGACCCTGATAGCATTGAGATGGTGGCCACCCGGGTGCTAGAACTCTCCATCCCAGCGTCGCCTGAGCAGATCCAGCAGCTGGCGGGTGAGATTGCAGAGAGGGTCCGGAGCCTGGCAGATGTGGACACAATCCTGGCGCGCACTGTGGGAGACGTGCGCCGGGCCGAGCAGCTCCTGAACGACGCGCGGCGGGCACG
Seq A exon
GTCTGATCCCCAACCTTGGACCCTCCTGCACCCCCGCTGCCCCCTCCTTGACACCTGATCCTGATACTGGCAGGCTCTGACTCCCTCTCTTCCCTAG
Seq C2 exon
GAGCCGGGCTGAGGGTGAGAAACAGAAGGCAGAGACAGTCCAGGCAGCACTGGAGGAGGCCCAGCGGGCACAGGGTGCTGCTCAGGGTGCCATCCAGGGGGCAGTGGTTGACACACAGGACACAGAGCAGACCCTACACCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000022635:ENSBTAT00000057452:29
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.329 A=NA C2=0.938
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:
CTGAGCAGATCCAGCAGCTG
R:
CCTGGACTGTCTCTGCCTTCT
Band lengths:
180-277
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]