GgaINT0022379 @ galGal3
Intron Retention
Gene
ENSGALG00000002521 | F1P543_CHICK
Description
NA
Coordinates
chr12:2267246-2267648:-
Coord C1 exon
chr12:2267574-2267648
Coord A exon
chr12:2267433-2267573
Coord C2 exon
chr12:2267246-2267432
Length
141 bp
Sequences
Splice sites
5' ss Seq
AATGTGAGT
5' ss Score
7.8
3' ss Seq
TCCCCCTCTCTCTACTGCAGGAC
3' ss Score
12.21
Exon sequences
Seq C1 exon
GAATCCAGCCCCGGTGTGCCCTTCTGGTCGGGGGACAGGAGGTGTCCCCACCCACTGACGTTCGACATCAGCAAT
Seq A exon
GTGAGTGCATGGAGATGTGGGGCCGGGGAGAGCTGCTGGTGGGCAGTGGGCACGGCAGCGGGCAGAGCTGCTCACGCAACCTGAACGGGCTCCGCAGCATGCAGGATGAGCGGCGCCTCCATCCCCCTCTCTCTACTGCAG
Seq C2 exon
GACACCCACCTGGCATACGTGGAGGCTGCTGCCCACCTTCTGGCTCACACCTACAGGCTGCCATCCTGCGGTGACCGGGTGGCCACGCGGGATGTGCTCTGCCACACGGTGCTGCCACCCTTCGTGCCCAAGGATGGGCGCTACGTCCCCACGGTGGAGGGCGTGGAAGAGGTGGAGGAGGCTCTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002521:ENSGALT00000003973:15
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.120 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0213416=UBACT=PU(7.1=20.0)
A:
NA
C2:
PF0213416=UBACT=FE(88.6=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:
CCTTCTGGTCGGGGGACAG
R:
CAGAGCCTCCTCCACCTCTTC
Band lengths:
242-383
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]