GgaINT0126189 @ galGal3
Intron Retention
Gene
ENSGALG00000004920 | TRUB2
Description
NA
Coordinates
chr17:5620432-5621024:+
Coord C1 exon
chr17:5620432-5620504
Coord A exon
chr17:5620505-5620887
Coord C2 exon
chr17:5620888-5621024
Length
383 bp
Sequences
Splice sites
5' ss Seq
GATGTACGT
5' ss Score
6.45
3' ss Seq
TCCTCTTCTCCTTTTTCCAGGCA
3' ss Score
11.55
Exon sequences
Seq C1 exon
ACCATATCACGAGGGAGAAGCTGGAACGGATCCTCGCCGTCATCCAAGGGACGAATCACAAAGCCCTGCTGAT
Seq A exon
GTACGTATGTAAAGAAACAGCGTGGCTGTGTTTGCCATTACAGCTTGTAAAGGTTTGAGCAGACAGAAGTGCAGTCACTCACAGTGCTCTGTATGCCTGTGAGAGACCACTGCTAAGTGTCCTTTTTGCATTCTGACACCTCCAGCTCCGATAGGCTGCAGTAGGACCTCCACTGATGTCTCATGGATGTGGCCAACCACCTCCCTCCCAAACTGCTACACTACTGAGCACAGCACAGCATTAAGATGTGTGCAGAAACTTAATGCATGGGCAGCCCTGAGAATAACAAGTGCAGCTCTGCCTTAGTCGAGACCGTATCTATTTCAAATCCCATTGAAGAGCAGCACTCAGTGTCTGCTCTGCTCCTCTTCTCCTTTTTCCAG
Seq C2 exon
GCATTCTCACATCGATATGAAAACACAGGAGGCCTACGAGCTGGCTGTGAAGGGGTTGATTCGTCCCATGGGAAAAAGCCCCCCAATCATCACTGCAATCCGGTGTCTGCAGTTTGCACTCCCTGAATTCCAGCTAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004920:ENSGALT00000007872:6
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:
PF0150913=TruB_N=FE(16.0=100)
A:
NA
C2:
PF0150913=TruB_N=FE(30.7=100)
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:
ACCATATCACGAGGGAGAAGCT
R:
GCTGGAATTCAGGGAGTGCAA
Band lengths:
207-590
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]