DreINT0091307 @ danRer10
Intron Retention
Gene
ENSDARG00000060683 | lrsam1
Description
leucine rich repeat and sterile alpha motif containing 1 [Source:ZFIN;Acc:ZDB-GENE-060526-97]
Coordinates
chr5:32281471-32281675:-
Coord C1 exon
chr5:32281631-32281675
Coord A exon
chr5:32281549-32281630
Coord C2 exon
chr5:32281471-32281548
Length
82 bp
Sequences
Splice sites
5' ss Seq
AAAGTGAGT
5' ss Score
8.4
3' ss Seq
AGTTTTTTCTTTAACTGTAGGTG
3' ss Score
9.13
Exon sequences
Seq C1 exon
GTTCCCTCCTGTGCCTTCTCTATGTGTAAAGTGCTTCAGAAGAAA
Seq A exon
GTGAGTCTGTATATTTCTTTCTCTGAACTGTTGGTGGTCGGAGCGAATACAATTTTGAAAGCAGTTTTTTCTTTAACTGTAG
Seq C2 exon
GTGTTAATTCTTCATACAAATGACCTGAGGTCACTCGTACCTAAAGGCTGCTGTCTTGGTGCCTTAGCAACATTAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000060683:ENSDART00000085769:3
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:
PF127992=LRR_4=PU(7.3=11.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTTCCCTCCTGTGCCTTCTCT
R:
CTAAGGCACCAAGACAGCAGC
Band lengths:
112-194
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]