DreINT0075468 @ danRer10
Intron Retention
Gene
ENSDARG00000045481 | gsap
Description
gamma-secretase activating protein [Source:ZFIN;Acc:ZDB-GENE-041210-216]
Coordinates
chr4:20485342-20487041:-
Coord C1 exon
chr4:20486947-20487041
Coord A exon
chr4:20485462-20486946
Coord C2 exon
chr4:20485342-20485461
Length
1485 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGA
5' ss Score
10.77
3' ss Seq
ATGTATGCATTTGTGCCTAGGTT
3' ss Score
7.54
Exon sequences
Seq C1 exon
TAAGCAGCAGGGTAACTCGGAGGAATGGGCCATGTTTCATGTGATGTTTCGCATACTGGAAGCCACTAAAGGGCTCTGTCTTCCTCTTCCTCCAG
Seq A exon
GTAAGAGAAAGTCTGACAACGTTTAGAAAAGCCTTGTGAGCTGCCATTTGGTCTTTCAGCTAAAGAAAAAAACTCTAAACCTCACAAGTGACTTATTTGGAATGCTCTACGTAGGAAGGAACTCAACAAAACATCCCTCCCCACATGAAGAAATTAGCTATTGATTCCAGTAGTTTGATGTTAAAAAGCAATACACCAGCAGTTCACTTTTTTAACCCCATTATCCACAATTTTTGAAGGCCGCAAGACTTGGTGGGTTTAAATTGATTGATTGATTGATTGATTGATTAATTGATTAATTAATCCTTAAAGTGATCGTTCTCCAAAAATGAAAATTGACAGTTAATTTACTCATGACCCTCAGGTCATTGAAAGTTCAGGTCACTTATTAGCTAAATCAGTGGTCCTTTTGTTTAGTATAATGCAAGTTAATGGTCGCCTGGTTTTATGATTCAAAATAAATATACAAACAAGGTCATTTACCTGCATAATTAGAATAACCAAGTACTAGAGATTTAGCAAAAAATATCTATAATGTTGTCTCGAAGAATAGAGATGGGAGAAATCAAGCTTTTCAAAACAATTGAACCAATTGCTTCACAAAAAGATTAACTTTTTTAAAGCATTTAAAACAGCAAATGCAAGGTTCACCTGTTGGTCAAAACTAAGTAAACGCAAACAAAATTTTAAATTGAAAGTATAACTTTAAATGCACTTATCGTATCATTTCATATCAGAACGCATTAAGTATATGCATAATTTGCATTCTTTTATACAATTCCTTGGCCTATATATTGTGTTTTATTGTAGGCTTTGCTTAACAGGCAAAAATATTCGTAACTATTATTAAATATGATTAATTTTGCATTCATGTAAGTTTACAAATGTCTTAATGTACAAACTCATAACACTGATCTGAGATCAGGTAAAAACTATCAAACCTATTCATTGATTCATTTGATGGTCTGTGAAATTGGGGGGGGGGGGATATAAAGTCAGAATTGCAGACTTATGAGGAATTATGGTGCTGTGCTTTCTCTGCCAAATTCATGATTCTGCATTTGATTTTTGGCATAAATTAGTCTCTTGTGCAACAAAATGTAACTTACTAGGTTTTACAGAGTTTATTTTCTTAATATATAAATGTATATATACATTTTGTAGTTCCTTAATAATGCCAAAAATATTTTTTTTAGTTCACCCATTGATTACCAAAGACATTGTAACTGTCTGATGATTCATCAAGCATCTCTGCAAAATCCAAATAAATCCCATATAGTTTAGATCTTGGGTGTGTCTGATTCCATGACCCATTGAGACCATTTCAGAAATCTAAAGCATGCCAGATCTGTTTGGGTGGATCTGCTCTTTGACACAAATGCTTCTGCAAGGACTCAGCCCTATCTGGGAGATGATTAACAGTAGAAACACTACTCTGCTAACTGGTCATATTAAGTGTATTATAATGTATGCATTTGTGCCTAG
Seq C2 exon
GTTATTCAACACTGTTAAGTGTTCTTGGAGTCCGTTGTCTCCCACAGCACACTTTTCTCCAGTATGTGGATCATGGCCTTCTTCAACTTACAGAACCATTTGTTTCACGCCTCATGACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000045481:ENSDART00000132464:19
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(27.8=100)
A:
NA
C2:
PF149591=GSAP-16=FE(34.8=100)
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:
TAAGCAGCAGGGTAACTCGGA
R:
CTGTCATGAGGCGTGAAACAA
Band lengths:
215-1700
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]