DreINT0075470 @ danRer10
Intron Retention
Gene
ENSDARG00000045481 | gsap
Description
gamma-secretase activating protein [Source:ZFIN;Acc:ZDB-GENE-041210-216]
Coordinates
chr4:20485027-20485461:-
Coord C1 exon
chr4:20485342-20485461
Coord A exon
chr4:20485089-20485341
Coord C2 exon
chr4:20485027-20485088
Length
253 bp
Sequences
Splice sites
5' ss Seq
CAGGTACGG
5' ss Score
10.88
3' ss Seq
GTTTATCTACCTCATGCCAGATT
3' ss Score
6.18
Exon sequences
Seq C1 exon
GTTATTCAACACTGTTAAGTGTTCTTGGAGTCCGTTGTCTCCCACAGCACACTTTTCTCCAGTATGTGGATCATGGCCTTCTTCAACTTACAGAACCATTTGTTTCACGCCTCATGACAG
Seq A exon
GTACGGATTTAAAAACGCATAGTGTAATATACTGTTCCTAAAGCTGTCTATTTAACATATAGAATAGATAGCAACATTAGTTTAACATTACCTGCTAGCTTGGAACTCCTTGGACACCAAAAGATAAAACTTACCCATAACCTGGAGAAATCTGTTACATTTTAATCAAACTGTGCATTTAGATAAAACTGCAAAATATGAAAAAATGCATTTGATGTTCTCTTACTCTTTCTGTTTATCTACCTCATGCCAG
Seq C2 exon
ATTTAGATAACAGTGATGCCAATGAGCAGCTGAAGTTCAGTATCCTGAAAAGACTTCCTGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000045481:ENSDART00000132464:20
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(34.8=100)
A:
NA
C2:
PF149591=GSAP-16=PD(10.4=57.1)
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:
ACTGTTAAGTGTTCTTGGAGTCCG
R:
GAACTTCAGCTGCTCATTGGC
Band lengths:
148-401
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]