GgaINT0031315 @ galGal4
Intron Retention
Description
Uncharacterized protein [Source:UniProtKB/TrEMBL;Acc:F1NXF9]
Coordinates
chr9:19793740-19794214:-
Coord C1 exon
chr9:19794086-19794214
Coord A exon
chr9:19793869-19794085
Coord C2 exon
chr9:19793740-19793868
Length
217 bp
Sequences
Splice sites
5' ss Seq
ACGGTGAGT
5' ss Score
11.45
3' ss Seq
CTGGCACTTTCCTTTCTCAGGGT
3' ss Score
9.81
Exon sequences
Seq C1 exon
AATGTCTCCCTGGCAAGTACGGCCCCAACTGCAGCTTGGACTGCTCATGCCAGCACAACGGCACCTGCGACAGGTTCACGGGCTGCTGCCTCTGCCCCGCGGGGTTCTACGGGCGCTCCTGTGAGCACG
Seq A exon
GTGAGTACACACACCCCACACAGCCCCACCACCTGTCCGCCCGCAGGGACAAATGGGGTCTCAGAGATGTTGCTGTAGAGCAAATGGGGTTATTACTGGCAATAGTAAATATCAATTCTGTTGGCTCCCAAAGAAGGTAGCTGCAAATATAGAGGGGCTTAAACTGATCCATGTTTTTCTTCCTCCTCTTTCCTCACCTGGCACTTTCCTTTCTCAG
Seq C2 exon
GGTGCCCCCCCGGGTTTTATGGGCTGAGCTGCCTTCATGCATGTGCCTGTAAAAACGGAGCGAGCTGCGATGCCGTGATGGGACAGTGCATTTGTCCCTCGGGGTACCATGGTATCCACTGTGAGAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000009458:ENSGALT00000015394:30
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:
PF0005319=Laminin_EGF=PU(63.0=65.9)
A:
NA
C2:
PF0005319=Laminin_EGF=PD(34.8=36.4),PF079748=EGF_2=WD(100=61.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Human
(hg19)
No conservation detected
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AATGTCTCCCTGGCAAGTACG
R:
CACAGTGGATACCATGGTACCC
Band lengths:
252-469
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]