GgaINT0134354 @ galGal3
Intron Retention
Gene
ENSGALG00000013701 | F1P457_CHICK
Description
NA
Coordinates
chr21:4995540-4996303:-
Coord C1 exon
chr21:4996181-4996303
Coord A exon
chr21:4995677-4996180
Coord C2 exon
chr21:4995540-4995676
Length
504 bp
Sequences
Splice sites
5' ss Seq
CGTGTAGGC
5' ss Score
0.82
3' ss Seq
ATAGGGTTTTGTCATTGCAGCAA
3' ss Score
4.72
Exon sequences
Seq C1 exon
CTCCTCCCTGACGTACCGCGTGGTGCTGGGCGAGCACAACCTGGCAGTGGAGGACGACGGCGCGGTGGTGGCTGAGGTGGAGAAGATCGTTGTGCACGAGAAGTGGAACTCCTTCCTCATCGT
Seq A exon
GTAGGCAGCAAAGGGGGGAGGGAGGAGGTGTGCCAACCCAAGGTTGGGTGCAGGGACGGGTCTGGTTGGCAGTGCTCTACAAGATTTGGTTGGTGGCTCTCTATGGGGTTTGGCTGGTGGTGCTCTACAGGGTTTGGCTGGAGGCACTCTATGGGGTTTGCTTGGCAGTGCTCTACAGAATTTGGTGATGCTCTAAGGGGTTTGGTTGGAGGCACTCTCCTGGGTTGGTTGACAGTTCTCTATAGGGTTTGGTTGGCAGTGCTCTACGGGATTTGGTTGGAGGCACTCTATGGGGTTTGGTTGGTGGTGCTCTACAGGGTTTGGTTAGAGGCACTCTATGGGGTTTGGTTGGTGGTGCTCTACAGGGTTTGTTAAGTGACGTTCTACAGGGTTTGGTTGACAGTTCTTAATGGGGTTTGGTTGGTGGTGCCCTACAAGGTTTGGTTGGTGGCTCTCTACGGGCTGTGTTGGTTGACTGTGTTCTATAGGGTTTTGTCATTGCAG
Seq C2 exon
CAATGACATTGCTTTGATCAAGTTGACGGAACCAGTGCAGGAGAGTGACACCATCCAGGCTGCCTGCCTGCCGCCCAGCGGGCTGGAGCTGGAGAATGACTACCCTTGCGAGATCACTGGCTGGGGACGCCTCTGGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000013701:ENSGALT00000022280:4
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:
PF0008921=Trypsin=FE(21.6=100)
A:
NA
C2:
PF0008921=Trypsin=FE(24.2=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:
CTCCTCCCTGACGTACCGC
R:
CAGCCAGTGATCTCGCAAGG
Band lengths:
246-750
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]