GgaINT0132879 @ galGal3
Intron Retention
Gene
ENSGALG00000013781 | Q90WH5_CHICK
Description
NA
Coordinates
chr19:14308-14646:+
Coord C1 exon
chr19:14308-14453
Coord A exon
chr19:14454-14555
Coord C2 exon
chr19:14556-14646
Length
102 bp
Sequences
Splice sites
5' ss Seq
AAAGTAGCA
5' ss Score
-2.94
3' ss Seq
TGGTGTTTCTTCTCTTCCAGGAA
3' ss Score
11.61
Exon sequences
Seq C1 exon
CTGGAGAGCTCACTGGAACAGGAGAAAAAGATACGGATGGACCTGGAACGAGCCAAAAGGAAGCTGGAAGGTGACTTAAAGCTAGCTCAGGAGAGCATTATGGACCTGGAGAATGACAAGCAGCAGCTGGAGGAGAGGCTGAAAAA
Seq A exon
GTAGCAAACTGCCCACTACCTCTTCCATCCCCTTGTCTCTTACTCATAATCCTGCTCTTCTCTAAGAACCTGGGACTATGACTGGTGTTTCTTCTCTTCCAG
Seq C2 exon
GAAAGACTTTGAACTCAACACACTCAATGCTCGAATTGAGGATGAGCAAGCGATTTCTGCCCAGCTCCAGAAGAAGCTGAAAGAGCTTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000013781:ENSGALT00000040718:24
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.380 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0157614=Myosin_tail_1=PD(54.0=69.4),PF045827=Reo_sigmaC=PU(27.9=79.6),PF0157614=Myosin_tail_1=PU(4.1=28.6)
A:
NA
C2:
PF045827=Reo_sigmaC=FE(21.4=100),PF0157614=Myosin_tail_1=FE(8.8=100),PF079267=TPR_MLP1_2=PU(0.8=3.2)
Main Inclusion Isoform:
NA
Other Inclusion 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:
CTGGAGAGCTCACTGGAACA
R:
TCAGCTTCTTCTGGAGCTGGG
Band lengths:
226-328
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]