DreINT0075475 @ danRer10
Intron Retention
Gene
ENSDARG00000045481 | gsap
Description
gamma-secretase activating protein [Source:ZFIN;Acc:ZDB-GENE-041210-216]
Coordinates
chr4:20493666-20493985:-
Coord C1 exon
chr4:20493899-20493985
Coord A exon
chr4:20493759-20493898
Coord C2 exon
chr4:20493666-20493758
Length
140 bp
Sequences
Splice sites
5' ss Seq
TGGGTCAGT
5' ss Score
4.68
3' ss Seq
TTCTCATTTATTTGTTTCAGATT
3' ss Score
10.21
Exon sequences
Seq C1 exon
GCTGCAGTAAGACATTCACTGTATCTCTAGAGCAAGGCTCTGCACCAGCAAATTTCCCAACTGTCCGTCCTATCTTCATTCATCTGG
Seq A exon
GTCAGTATAGCCATAATCTCTTACTCAACCCAGACAAATCCATTTAACCCAGTTTAAATTTCTCACATATATTAAGAAAATGGAAAGTCATTCAAATTGAAATTCAGCTGAAAGGTAATTTTCTCATTTATTTGTTTCAG
Seq C2 exon
ATTATTATATAGTGGTGTACATGCCTGATCAGTTCCTGCACTTAATCAACTGCAGACAACAGGACCTTCTCTGCTACAGTCTTTTCCTGTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000045481:ENSDART00000132464:7
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:
NO
A:
NA
C2:
NO
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:
GCTGCAGTAAGACATTCACTGT
R:
AAGACTGTAGCAGAGAAGGTCCT
Band lengths:
170-310
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]