DreINT0075467 @ danRer10
Intron Retention
Gene
ENSDARG00000045481 | gsap
Description
gamma-secretase activating protein [Source:ZFIN;Acc:ZDB-GENE-041210-216]
Coordinates
chr4:20486947-20487191:-
Coord C1 exon
chr4:20487121-20487191
Coord A exon
chr4:20487042-20487120
Coord C2 exon
chr4:20486947-20487041
Length
79 bp
Sequences
Splice sites
5' ss Seq
CATGTATGT
5' ss Score
5.71
3' ss Seq
AATTATTGTCTCTGTTATAGTAA
3' ss Score
6.61
Exon sequences
Seq C1 exon
CTTGAACTCATCTGGCACGTGTTGGAATTGGTGTGGCAGAAGCTGAAGTTGGGCCCTTGGGTGCTTTGCAT
Seq A exon
GTATGTGCACCTTGTTTTACTTCTTTTTAAGAAAGTGAAGACTTGAATATAAAGCCTTCAATTATTGTCTCTGTTATAG
Seq C2 exon
TAAGCAGCAGGGTAACTCGGAGGAATGGGCCATGTTTCATGTGATGTTTCGCATACTGGAAGCCACTAAAGGGCTCTGTCTTCCTCTTCCTCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000045481:ENSDART00000132464:18
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:
PF149591=GSAP-16=FE(20.0=100)
A:
NA
C2:
PF149591=GSAP-16=FE(27.8=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Human
(hg19)
No conservation detected
Mouse
(mm10)
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:
TGAACTCATCTGGCACGTGTT
R:
GGAAGAGGAAGACAGAGCCCT
Band lengths:
159-238
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]