DreINT0075460 @ danRer10
Intron Retention
Gene
ENSDARG00000045481 | gsap
Description
gamma-secretase activating protein [Source:ZFIN;Acc:ZDB-GENE-041210-216]
Coordinates
chr4:20491804-20492088:-
Coord C1 exon
chr4:20492009-20492088
Coord A exon
chr4:20491885-20492008
Coord C2 exon
chr4:20491804-20491884
Length
124 bp
Sequences
Splice sites
5' ss Seq
AAGGTACTG
5' ss Score
8.56
3' ss Seq
TATGCACCATTTTTTTCTAGGAG
3' ss Score
8.17
Exon sequences
Seq C1 exon
CCTCCTTGTACAGAATAAGCTACCAGCAGTGTGTGAGCTTAGATAAGCTGTTGCCATACTCCTGTGTATTTGAGAAGAAG
Seq A exon
GTACTGCACTTCTTTAGCTCTTTGATCAAATATTTTCCTCTAATGAAACAGATTCTATATATTTTAAATGTTTTTGTTGACATTCACTTGTTGAAAGAAGGTCTTATGCACCATTTTTTTCTAG
Seq C2 exon
GAGCTTCCTGTGGCTCTGACGGCAATCTCTGGTGTGAAATGCACCCCTGAACTGCTCTGTCAACCAATAATCAAAGGGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000045481:ENSDART00000132464:11
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
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:
TCCTTGTACAGAATAAGCTACCAGC
R:
CCCTTTGATTATTGGTTGACAGAGC
Band lengths:
156-280
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]