GgaINT0039872 @ galGal3
Intron Retention
Gene
ENSGALG00000002090 | GPSM2
Description
NA
Coordinates
chr8:1332102-1332588:+
Coord C1 exon
chr8:1332102-1332210
Coord A exon
chr8:1332211-1332458
Coord C2 exon
chr8:1332459-1332588
Length
248 bp
Sequences
Splice sites
5' ss Seq
GAGGTATGA
5' ss Score
8.55
3' ss Seq
GTTAATTTATTTGGTTACAGGTA
3' ss Score
6.42
Exon sequences
Seq C1 exon
AATTGGTGAAGGAAGAGCATGCTGGAGTTTAGGGAATGCATATACTGCTCTGGGCAATCATGACCAAGCCATGCACTTTGCTGAGAGGCACCTGGAGATCTCCAGAGAG
Seq A exon
GTATGATGGTCACTCGTGTCTGTTGGCTGCCAGGTTTTTGCTGTCACTGAGAGCCTGGCAGAGGTTATTTTAGGCTTTGGTTTGTGCTTTTGATGTACTTCATTAAAAAGATGGCTCTAGCAGTTTTCAACAAGAAAAACCTTTTAAACCCTTTTCTCTTAGAGTTCTGGGAAGAATGTTTCCTTTGTAAATACATATGTATATGTTTTTGGTACAGTAACAGAACTGGTTAATTTATTTGGTTACAG
Seq C2 exon
GTAGGAGATAGAAGTGGGGAACTCACTGCTAGACTTAATCTCTCAGATCTTCAAATGGTTCTTGGATTAAGCTATAGCACAAACACTTCCATGATGTCAGAAAGCCATGCGGTAGATAACAGTCTGAATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002090:ENSGALT00000003258:9
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=0.250
Domain overlap (PFAM):
C1:
PF134241=TPR_12=FE(56.2=100)
A:
NA
C2:
PF134241=TPR_12=PD(37.5=54.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGGTGAAGGAAGAGCATGCTG
R:
CATTCAGACTGTTATCTACCGCA
Band lengths:
236-484
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]