DreINT0091308 @ danRer10
Intron Retention
Gene
ENSDARG00000060683 | lrsam1
Description
leucine rich repeat and sterile alpha motif containing 1 [Source:ZFIN;Acc:ZDB-GENE-060526-97]
Coordinates
chr5:32281312-32281548:-
Coord C1 exon
chr5:32281471-32281548
Coord A exon
chr5:32281381-32281470
Coord C2 exon
chr5:32281312-32281380
Length
90 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGA
5' ss Score
8.68
3' ss Seq
TCTCTTTGTTCATTCTAAAGGTC
3' ss Score
8.23
Exon sequences
Seq C1 exon
GTGTTAATTCTTCATACAAATGACCTGAGGTCACTCGTACCTAAAGGCTGCTGTCTTGGTGCCTTAGCAACATTAAAG
Seq A exon
GTGAGAGAAACTGACTGATGTCACCAATGAAAAATAAATAACTGTCTCGCTATATTGTCTAGTTATAACATCTCTTTGTTCATTCTAAAG
Seq C2 exon
GTCTTGGATCTACATGAAAATAAGCTCACATCACTTCCAGATGAGATCGGACAGCTTTCGTCCTTGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000060683:ENSDART00000085769:4
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:
PF127992=LRR_4=PU(7.3=11.5)
A:
NA
C2:
PF127992=LRR_4=FE(53.7=100)
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:
TAATTCTTCATACAAATGACCTGAGG
R:
CTGCAAGGACGAAAGCTGTCC
Band lengths:
143-233
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]