BtaINT0084372 @ bosTau6
Intron Retention
Gene
ENSBTAG00000022635 | LAMC1
Description
Bos taurus laminin, beta 2 (laminin S) (LAMB2), mRNA. [Source:RefSeq mRNA;Acc:NM_001046247]
Coordinates
chr22:51456200-51456436:+
Coord C1 exon
chr22:51456200-51456256
Coord A exon
chr22:51456257-51456347
Coord C2 exon
chr22:51456348-51456436
Length
91 bp
Sequences
Splice sites
5' ss Seq
CAGGCAGAG
5' ss Score
-0.65
3' ss Seq
CCTCTTCCTCTCCTCTTCAGGAT
3' ss Score
12.08
Exon sequences
Seq C1 exon
GAGGGACCGCTGGACCGACAGAGGACCGAGTGGGGAATCAGCCAAGGACCCACACAG
Seq A exon
GCAGAGTCAACATGGGACCCCAAGGGAGGGGATAGGAGGGCACGGGCCCCAGGCCTCTCATCCCCCATCATCCTCTTCCTCTCCTCTTCAG
Seq C2 exon
GATGGAGTGGGTCGCAGCAGGGGGACGAGGGAGGGACCTGCCGGGACAGCCTGGGCCCTGGCAGCTTCATCTGGGCCTGCTGCTGAGCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000022635:ENSBTAT00000057452:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=0.167
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GACCGCTGGACCGACAGAG
R:
CAGCAGGCCCAGATGAAGC
Band lengths:
135-226
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]