GgaINT0016197 @ galGal3
Intron Retention
Gene
ENSGALG00000004050 | F1NWE0_CHICK
Description
NA
Coordinates
chr14:2269326-2269980:-
Coord C1 exon
chr14:2269839-2269980
Coord A exon
chr14:2269511-2269838
Coord C2 exon
chr14:2269326-2269510
Length
328 bp
Sequences
Splice sites
5' ss Seq
AAAGTAAGA
5' ss Score
6.91
3' ss Seq
TGCCTTCCCTTTGACTACAGAAA
3' ss Score
7.24
Exon sequences
Seq C1 exon
GAGGATAATAAAAGCAATACCCTCTTTCATGATGCAAATGTGTTGGCCTCTGCACTTGACTTGCTCATGGCTGGCACTGAAACAACGTCCACCACCCTGCAGTGGGCCGTCCTGCTGATGATGAAGTACCCCGAGATTCAAA
Seq A exon
GTAAGACACCTTTGTGGGCTCACTTCTCTTACACAGGGAATTAAAGCTCTCTGCAGTGGCTTCATAAATGCTGCTCACCTACAAAAGCCCCATGTCTTCTCTCTAGGGCATCCAGAATCTGAGTGCCTGCAGTGTGTCTGTCTCTATAAAAGCTTTGTATGCTGCCCTTCAGGACTGAGGGATCGGGGCTTGCTCTCACACCTACTGCCAGGGGCTGCATATCTTCACTGCATCCCGGGGTGGTTCAGCCAGCAGTCACCATGGGTCAGGGTTTGGAGATGCTTTACTGTGGAGGGAAACTCACTCAATGCCTTCCCTTTGACTACAG
Seq C2 exon
AAAAGGTGCATGCAGAGATTGAGCGCGTTCTTGGCCCTGACTGCCCGCCTACCTTTGAGGACCGGAAAAACATGCCCTTCACCAACGCGGTCATCCACGAGGTGCAGAGATTTGTCACCCTTCTGCCGCATGTTCCACGGTGCACCTCTGCTGACACTCGTTTTAAAGGCTATTTCATACCCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004050:ENSGALT00000006446:6
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:
PF0006717=p450=FE(10.3=100)
A:
NA
C2:
PF0006717=p450=FE(13.4=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Mouse
(mm10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAGGATAATAAAAGCAATACCCTCTT
R:
TGAAATAGCCTTTAAAACGAGTGTCA
Band lengths:
319-647
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]