DreINT0091661 @ danRer10
Intron Retention
Gene
ENSDARG00000026281 | lyrm1
Description
LYR motif containing 1 [Source:ZFIN;Acc:ZDB-GENE-040718-210]
Coordinates
chr24:39626045-39626260:-
Coord C1 exon
chr24:39626200-39626260
Coord A exon
chr24:39626077-39626199
Coord C2 exon
chr24:39626045-39626076
Length
123 bp
Sequences
Splice sites
5' ss Seq
TTGGTGTGT
5' ss Score
3.29
3' ss Seq
TTGTTTGTTTCTCATGCCAGGTC
3' ss Score
10.26
Exon sequences
Seq C1 exon
ATAACAGACCCAGAATCAATCCAGAGATGCATTGAAGAGTGTGAAGCTCGGATAGAAATTG
Seq A exon
GTGTGTATCTCACATATCAGTGGTTCACTTTTGAGTTTTGTTTAGTTGGAAGTACATGTCAGATTTGGTGTTTTCAAATAGGAGGATGATCAGTAAAGTTTTTTTGTTTGTTTCTCATGCCAG
Seq C2 exon
GTCTGCATTATAGGAACCCCTACCCCAGACCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000026281:ENSDART00000031486:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.032 A=NA C2=0.091
Domain overlap (PFAM):
C1:
PF0226314=GBP=FE(22.2=100),PF0534710=Complex1_LYR=PD(28.4=90.5)
A:
NA
C2:
PF0226314=GBP=PD(10.0=81.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Human
(hg19)
No conservation detected
Mouse
(mm9)
No conservation detected
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AACAGACCCAGAATCAATCCAGA
R:
GGTCTGGGGTAGGGGTTCCTA
Band lengths:
90-213
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]