GgaINT0114642 @ galGal3
Intron Retention
Gene
ENSGALG00000017094 | F1P2M4_CHICK
Description
NA
Coordinates
chr1:180355062-180355507:+
Coord C1 exon
chr1:180355062-180355207
Coord A exon
chr1:180355208-180355438
Coord C2 exon
chr1:180355439-180355507
Length
231 bp
Sequences
Splice sites
5' ss Seq
CAGGTCTGT
5' ss Score
6.84
3' ss Seq
CACTCTCCCACTCCCGGCAGGTG
3' ss Score
11.25
Exon sequences
Seq C1 exon
TCAAAACCAGGACGAAGGACAAATACCGCGTGGTGTACACGGACCACCAGCGGTTGGAGCTGGAGAAGGAGTTCCACTACAGCCGCTATATCACCATCCGGAGGAAAGCTGAGCTGGCCTCCAGCCTGGGGCTGTCGGAGAGGCAG
Seq A exon
GTCTGTGGTACGGTGCGGGCTGCGCGGGGCTGGGATGCGCGGATCGAGTTGCGCGGGTCCGGTTGCGCAGGTTGGGATACGACGGACGGAAATACGCGGGACGGAGATGCGCGGATCGGGTTGCGCGGGTCGGGCTGCGTGGATTACGATGCGCGGATCGGCTTGCGCGCCCGCCGCTGAGCCCCGTGCTTTGAAACTGACTGCGCTTTTTCACTCTCCCACTCCCGGCAG
Seq C2 exon
GTGAAAATCTGGTTCCAGAACCGTCGGGCGAAGGAGAGGAAGATCAACAAGAAGAAGCTGCAGCAGGCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000017094:ENSGALT00000027613:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.265 A=NA C2=0.652
Domain overlap (PFAM):
C1:
PF0004624=Homeobox=PU(73.7=85.7)
A:
NA
C2:
PF0004624=Homeobox=PD(22.8=56.5)
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:
TCAAAACCAGGACGAAGGACA
R:
CCTGCTGCAGCTTCTTCTTGT
Band lengths:
213-444
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]