DreINT0075477 @ danRer10
Intron Retention
Gene
ENSDARG00000045481 | gsap
Description
gamma-secretase activating protein [Source:ZFIN;Acc:ZDB-GENE-041210-216]
Coordinates
chr4:20492506-20492904:-
Coord C1 exon
chr4:20492684-20492904
Coord A exon
chr4:20492576-20492683
Coord C2 exon
chr4:20492506-20492575
Length
108 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGA
5' ss Score
8.68
3' ss Seq
TCATTTCTCCATCTTTTTAGATT
3' ss Score
10.13
Exon sequences
Seq C1 exon
GGGCGGATGGTCATATTGAAGCACTGTGTTCGGGCAGAGCGGTTGTGAGTGTGTCTGGCAACCGGCTGCTTGATGTCCAAGCTGGCAGGATATACAACATGGATCTCAACCCAGACTTCCTGCTTGAGCTTCTGAGTTCAGGCAGACCTGAAGCCCAGCAGCTGGCGGCTCTGCACTGCATGCTGGTTTACCTGCAGCCAAATCCTGTGCTAGAGCTCAAG
Seq A exon
GTGAGAAAAAGACTCGAGCAAAAAAGAGAGAAAAAGCAAGAGAGAGAGGGGTTAGTTCTGTGATAAGCAAATGTGCTGAAATGTATTTTCATTTCTCCATCTTTTTAG
Seq C2 exon
ATTATAAACTGGATCAGTGAGAACGTCATGAGCTTTGATGCTTTTGATCAGATTCAGGAATTTATTCTAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000045481:ENSDART00000132464:9
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:
ATTGAAGCACTGTGTTCGGGC
R:
AGCATCAAAGCTCATGACGTTCT
Band lengths:
249-357
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]