GgaINT0125834 @ galGal3
Intron Retention
Gene
ENSGALG00000001758 | QSOX2
Description
NA
Coordinates
chr17:8714767-8715136:+
Coord C1 exon
chr17:8714767-8714867
Coord A exon
chr17:8714868-8715087
Coord C2 exon
chr17:8715088-8715136
Length
220 bp
Sequences
Splice sites
5' ss Seq
AGGGTAAGT
5' ss Score
10.45
3' ss Seq
TCTTTTTTCTTCCCCCTTAGTTC
3' ss Score
10.29
Exon sequences
Seq C1 exon
ACTGGGAGTCTGCAATTAGAGTTGGTGTGCTGGACTGTGGGGAAGAAGAGAACTATGAGACGTGTAAGGAGTATGGGATCCACTTCTATCCAACTTTTAGG
Seq A exon
GTAAGTGCCATGGTATATTTATTGTCTTAGGTAAATGATGCATGTTTTATGATAACTAAAACCATAAACTTATTTACTGAGAGTATTTACTAGAAATTGTGATTCTCTACCCAGATCTTTGGAACACATAGGTTAGAGTAAAAACTATTTCAAGAACAGAGGGATAGAAATGTTTTGTAATAAGAGTAATCAGTAATACCTCTTTTTTCTTCCCCCTTAG
Seq C2 exon
TTCTTCAAAGCGTTTACAAAGCAGTTTACAACTGGAGAAAATTACAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000001758:ENSGALT00000034856:2
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:
PF0008515=Thioredoxin=FE(29.5=100)
A:
NA
C2:
PF0008515=Thioredoxin=FE(14.3=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGGGAGTCTGCAATTAGAGTTGG
R:
AGTTGTAAACTGCTTTGTAAACGCT
Band lengths:
132-352
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]