GgaINT0124259 @ galGal3
Intron Retention
Gene
ENSGALG00000004142 | F1P4F0_CHICK
Description
NA
Coordinates
chr17:6281867-6282260:+
Coord C1 exon
chr17:6281867-6281969
Coord A exon
chr17:6281970-6282188
Coord C2 exon
chr17:6282189-6282260
Length
219 bp
Sequences
Splice sites
5' ss Seq
ACGGTAAGA
5' ss Score
10.65
3' ss Seq
GTGTTTGTTTTTCCTCACAGAGC
3' ss Score
11.52
Exon sequences
Seq C1 exon
CTGAACAAGGCTTTCCTGGCAGAGGAGTCTCCAAGTGTCATCTATTGTATCAGCATGCAGTGGTTCCGTGAGTGGGAAGCCTTTGTCAGAGGGAAGGATAACG
Seq A exon
GTAAGAAGCCGGGGGTCGCTGGAGACTGTCAGTGCTGAGAGGTAGAATGAAAGTAAGTTCATTTTTAGGTGTCCTGCACCTGATGGAGTCTGGGCAGCAACCAGTCAGTGTCCCTGCAGGTCCCCGGGGTGGGGCAGAAATAATGAGGACTAAATGATGTGAATTGGGTGGCAGCATGGGAAGCACATTGATTCTAGATGTGTTTGTTTTTCCTCACAG
Seq C2 exon
AGCCTCCAGGACCAATTGACAACAGCAAGATTGCACTGACAAAAGCGGGTGGCCACATGCATGTTAAACAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004142:ENSGALT00000006585:21
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.057 A=NA C2=0.360
Domain overlap (PFAM):
C1:
PF063377=DUSP=PU(29.9=65.7)
A:
NA
C2:
PF063377=DUSP=FE(31.2=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:
CTGAACAAGGCTTTCCTGGCA
R:
GTTTAACATGCATGTGGCCACC
Band lengths:
172-391
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]