DreINT0091311 @ danRer10
Intron Retention
Gene
ENSDARG00000060683 | lrsam1
Description
leucine rich repeat and sterile alpha motif containing 1 [Source:ZFIN;Acc:ZDB-GENE-060526-97]
Coordinates
chr5:32279768-32280114:-
Coord C1 exon
chr5:32279993-32280114
Coord A exon
chr5:32279859-32279992
Coord C2 exon
chr5:32279768-32279858
Length
134 bp
Sequences
Splice sites
5' ss Seq
GAAGTGAGT
5' ss Score
7.97
3' ss Seq
TTGTATATGTGTGGTTTCAGAGC
3' ss Score
8.16
Exon sequences
Seq C1 exon
GGAACTGCCTTACTGTGTTGCCTGTGTCTGTGGGTCGCATGAGCAGCCTGCGGACACTCGACATAAGTGAGAACAGCATCAGAGAATTACCCAAAGAACTGGCCAGTGTTCGCACTCTGGAA
Seq A exon
GTGAGTACCTTATATGTCAATTTCAGTAAATCAAAACAAGACACATATTTGTGTAATATCACATCAAGCTCATAAACTCTGTGTCCACTCATATCTGGGATCTCATTCTCATATTTGTATATGTGTGGTTTCAG
Seq C2 exon
AGCCTGATCCTGGACGCACAGGTTATGAGCTTTCCACCTGCGTCAGTGTGTACAGGCGGCACAGAGGAAGTGCAGCGCTACCTCTGCTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000060683:ENSDART00000085769:7
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:
PF138551=LRR_8=FE(71.4=100)
A:
NA
C2:
PF138551=LRR_8=PD(8.9=16.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACTGCCTTACTGTGTTGCCTG
R:
CTGAGCAGAGGTAGCGCTG
Band lengths:
210-344
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]