GgaINT0016198 @ galGal3
Intron Retention
Gene
ENSGALG00000004050 | F1NWE0_CHICK
Description
NA
Coordinates
chr14:2268926-2269510:-
Coord C1 exon
chr14:2269326-2269510
Coord A exon
chr14:2269068-2269325
Coord C2 exon
chr14:2268926-2269067
Length
258 bp
Sequences
Splice sites
5' ss Seq
AAGGTACGT
5' ss Score
10.75
3' ss Seq
TGAACACAGCTGTGTTGTAGGGA
3' ss Score
1.69
Exon sequences
Seq C1 exon
AAAAGGTGCATGCAGAGATTGAGCGCGTTCTTGGCCCTGACTGCCCGCCTACCTTTGAGGACCGGAAAAACATGCCCTTCACCAACGCGGTCATCCACGAGGTGCAGAGATTTGTCACCCTTCTGCCGCATGTTCCACGGTGCACCTCTGCTGACACTCGTTTTAAAGGCTATTTCATACCCAAG
Seq A exon
GTACGTGCTGCTCTGCAGCCCACGAGCGGGTGGTAGCACACAGGGCAAAATGCCATGGGCAGATTTGGAGCGTGGGCTTCTGCTCAGAACTCAATAACAGCACAAAATGGCTTAGTCGTAGGTTAGTCAATAGAGTATCAATAACTAGTATCATTTGATTATGTACAGACCTAGAAATTGGTTCTCGGTAAGTTTTCTTGAAGTCTGAAAGGGGTTGTATGGCTAGATGGCCTTAAGCTGAACACAGCTGTGTTGTAG
Seq C2 exon
GGAACAACAGTGATTCCTCTGCTCTCCTCGGTGCTGCTGGATAAAACACAGTGGGAGACGCCAGATGAATTCAACCCCAACCACTTTCTTGATGCAGATGGGAACTTTGTAAAGAAGAAAGCGTTCCTCCCCTTCTCCACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004050:ENSGALT00000006446:7
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=0.042
Domain overlap (PFAM):
C1:
PF0006717=p450=FE(13.4=100)
A:
NA
C2:
PF0006717=p450=FE(10.3=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Mouse
(mm10)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGAGATTGAGCGCGTTCTTGG
R:
AGGGGAGGAACGCTTTCTTCT
Band lengths:
305-563
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]